Works (378)

Updated: April 22nd, 2024 07:45

2024 journal article

A statistical approach to system suitability testing for mass spectrometry imaging

RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 38(9).

By: A. Sohn n, R. Kibbe n, O. Dioli n, E. Hector n, H. Bai n, K. Garrard n, D. Muddiman n

Sources: Web Of Science, ORCID
Added: March 18, 2024

2024 journal article

Prototyping an ionization source for non-engineers

JOURNAL OF MASS SPECTROMETRY, 59(1).

By: K. Knizner n, S. Eisenberg n & D. Muddiman n

author keywords: computer-aided design; hardware interfacing; instrumentation prototyping; microcontroller; software development
Sources: Web Of Science, ORCID
Added: January 2, 2024

2024 journal article

Quantitative mass spectrometry imaging (qMSI): A tutorial

JOURNAL OF MASS SPECTROMETRY, 59(4).

By: R. Kibbe n & D. Muddiman n

author keywords: absolute quantification; mass spectrometry imaging; qMSI; relative quantification
TL;DR: This tutorial will detail the main factors to consider when designing a qMSI experiment and highlight the methods that have been developed to overcome these added complexities, specifically for those newer to the field of MSI. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: March 25, 2024

2024 article

RCM protocols: improving reproducibility in the field of mass spectrometry

Holman, S. W., Langley, G. J., Muddiman, D. C., & Novak-Mitchell, C. (2024, January 2). RAPID COMMUNICATIONS IN MASS SPECTROMETRY, Vol. 1.

By: S. Holman*, G. Langley*, D. Muddiman n & C. Novak-Mitchell*

Sources: Web Of Science, ORCID
Added: January 16, 2024

2023 journal article

Achieving Cross-Ring Fragmentation of <i>N</i>-Linked Glycans by IR-MALDESI

JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, 35(1), 166–171.

By: T. Palomino n & D. Muddiman n

author keywords: N-linked glycans; lithium doping; fragmentation; IR-MALDESI; cross-ring fragment
Sources: Web Of Science, ORCID
Added: January 16, 2024

2023 article

Achieving Sub-Parts-per-Million Mass Measurement Accuracy on an Orbitrap Mass Spectrometry Imaging Platform without Automatic Gain Control

Kibbe, R. R., & Muddiman, D. C. (2023, April 25). JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, Vol. 4.

By: R. Kibbe n & D. Muddiman n

author keywords: centroid; mass measurement accuracy; IR-MALDESI; mass spectrometry imaging; Orbitrap; automatic gain control
MeSH headings : Animals; Mice; Mass Spectrometry / methods; Data Accuracy; Lipids
TL;DR: There is support that natively collecting centroid MS data significantly improves MMA to sub-ppm levels without AGC and reduces false positive annotations. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: May 15, 2023

2023 article

Automatic z-Axis Correction for IR-MALDESI Mass Spectrometry Imaging of Uneven Surfaces

Xi, Y., Knizner, K. T. T., Garrard, K. P. P., & Muddiman, D. C. C. (2023, June 12). JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, Vol. 6.

By: Y. Xi n, K. Knizner n, K. Garrard n & D. Muddiman n

author keywords: mass spectrometry imaging; nonflat surfaces; IR-MALDESI; automatic z-axis correction
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: June 26, 2023

2023 article

Comparative analysis of sucrose-embedding for whole-body zebrafish MSI by IR-MALDESI

Wang, M. F., Ritter, M. M., Kullman, S. W., & Muddiman, D. C. (2023, August 29). ANALYTICAL AND BIOANALYTICAL CHEMISTRY, Vol. 8.

By: M. Wang n, M. Ritter n, S. Kullman n & D. Muddiman n

author keywords: IR-MALDESI; Mass spectrometry imaging; Sucrose; PFA; Zebrafish
TL;DR: Danio rerio, or zebrafish, are model organisms for various disease states and can be imaged as a multi-organ sample to analyze morphological and metabolomic preservation as a result of sample preparation to compare sucrose-embedding with paraformaldehyde fixation against conventional fresh-frozen sample preparation. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: September 25, 2023

2023 article

Development of an object-based image analysis tool for mass spectrometry imaging ion classification

Eisenberg, S. M., Knizner, K. T., & Muddiman, D. C. (2023, May 24). ANALYTICAL AND BIOANALYTICAL CHEMISTRY, Vol. 5.

By: S. Eisenberg n, K. Knizner n & D. Muddiman n

author keywords: IR-MALDESI; Object-based image analysis; Mass spectrometry imaging; Image segmentation; Image classification; MATLAB
TL;DR: The utility of an ion classification tool (ICT) developed using object-based image analysis in MATLAB is presented, which was able to accurately classify 45/50 ions as on-tissue or background. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: July 3, 2023

2023 journal article

Enhanced Detection of Charged N-Glycans in the Brain by Infrared Matrix-Assisted Laser Desorption Electrospray Ionization Mass Spectrometric Imaging

ANALYTICAL CHEMISTRY, 95(29), 10913–10920.

By: J. Samal*, T. Palomino n, J. Chen*, D. Muddiman n & T. Segura*

TL;DR: This work demonstrates the first application of IR-MALDESI in N-linked glycan imaging of the brain tissue, leading to a 2.5-fold increase in the in situ total brain N-glycan detection compared to the current gold standard of positive-mode matrix-assisted laser desorption/ionization mass spectrometry imaging. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: July 31, 2023

2023 journal article

Evaluating the optimal tissue thickness for mass spectrometry imaging using infrared matrix-assisted laser desorption electrospray ionization

RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 37(22).

By: A. Joignant n, K. Knizner n, Y. Xi n & D. Muddiman n

TL;DR: This work defines an optimal sample thickness for IR-MALDESI-MSI and demonstrates the utility of optimizing tissue thickness for MSI platforms of comparable Z resolution. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: October 30, 2023

2023 article

Impact of wavelength and spot size on laser depth of focus: Considerations for mass spectrometry imaging of non-flat samples

Joignant, A. N. N., Xi, Y., & Muddiman, D. C. C. (2023, March 14). JOURNAL OF MASS SPECTROMETRY, Vol. 3.

By: A. Joignant n, Y. Xi n & D. Muddiman n

author keywords: depth of focus; laser wavelength; mass spectrometry imaging; spatial resolution; surface roughness
Sources: Web Of Science, ORCID
Added: April 4, 2023

2023 article

Lipidomic Analysis of Mouse Brain to Evaluate the Efficacy and Preservation of Different Tissue Preparatory Techniques by IR-MALDESI-MSI

Wang, M. F., Sohn, A. L., Samal, J., Erning, K., Segura, T., & Muddiman, D. C. (2023, March 29). JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, Vol. 3.

By: M. Wang n, A. Sohn n, J. Samal*, K. Erning*, T. Segura* & D. Muddiman n

author keywords: IR-MALDESI; mass spectrometry imaging; sucrose; PFA
MeSH headings : Mice; Animals; Spectrometry, Mass, Electrospray Ionization / methods; Lipidomics; Ice; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods; Ions / chemistry; Lipids / analysis; Brain
TL;DR: Evidence from these investigations supports sucrose-embedding without ice matrix as an alternative preparatory technique for IR-MALDESI-MSI, and demonstrates improved spatial distribution of ions resulting from the cryo-protective property of sucrose and paraformaldehyde fixation. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: April 24, 2023

2023 article

Maximized Spatial Information and Minimized Acquisition Time of Top-Hat IR-MALDESI-MSI of Zebrafish Using Nested Regions of Interest (nROIs)

Joignant, A. N., Ritter, M. M., Knizner, K. T., Garrard, K. P., Kullman, S. W., & Muddiman, D. C. (2023, August 1). JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, Vol. 8.

By: A. Joignant n, M. Ritter n, K. Knizner n, K. Garrard n, S. Kullman n & D. Muddiman n

author keywords: IR-MALDESI; mass spectrometry imaging; spatialresolution; nested region of interest; zebrafish
TL;DR: The nROI method was characterized on mouse liver and applied to top-hat MSI of zebrafish using a novel optical train, which resulted in a significant improvement in both acquisition time and spatial detail of the zebra fish. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 21, 2023

2023 article

Metabolite Annotation Confidence Score (MACS): A Novel MSI Identification Scoring Tool

Eisenberg, S. M., Knizner, K. T., & Muddiman, D. C. (2023, August 22). JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, Vol. 8.

By: S. Eisenberg n, K. Knizner n & D. Muddiman n

author keywords: IR-MALDESI; annotation scoring; mass measurementaccuracy; spectral accuracy; SSIM; MATLAB
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: September 5, 2023

2023 article

On the importance of color in mass spectrometry imaging (vol 57, e4898, 2022)

Muddiman, D. C. (2023, May). JOURNAL OF MASS SPECTROMETRY, Vol. 58.

By: D. Muddiman n

Sources: Web Of Science, ORCID
Added: May 15, 2023

2023 article

Predicting Sialic Acid Content of N-Linked Glycans Using the Isotopic Pattern of Chlorine

Palomino, T. V., & Muddiman, D. C. (2023, June 8). JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, Vol. 6.

By: T. Palomino n & D. Muddiman n

author keywords: N-linked glycans; sialic acid; chlorine; IR-MALDESI
MeSH headings : Humans; N-Acetylneuraminic Acid; Chlorine; Polysaccharides / chemistry; Sialic Acids / analysis; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: A new rule is described that can predict the number of sialic acids on a glycan and grants confident glycan annotations and compositions beyond accurate mass measurements, thereby further improving the capability of IR-MALDESI to study sialylated N-linked glycans within biological tissues. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: June 26, 2023

2023 journal article

Quasi-continuous infrared matrix-assisted laser desorption electrospray ionization source coupled to a quadrupole time-of-flight mass spectrometer for direct analysis from well plates

JOURNAL OF MASS SPECTROMETRY, 58(1).

By: C. Arciniega n, K. Garrard n, J. Guymon n, J. Manni Sr, A. Apffel*, J. Fjeldsted*, D. Muddiman n

author keywords: ambient ionization; direct analysis; IR-MALDESI; Q-TOF mass spectrometer
TL;DR: An infrared matrix‐assisted laser desorption electrospray ionization (IR‐MALDESI) source coupled directly to an Agilent 6545 for direct analysis from well plates and is a proof of concept for HTS applications using IR‐MAL DESI coupled to a different MS platform. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: February 13, 2023

2023 journal article

SMART: A data reporting standard for mass spectrometry imaging

JOURNAL OF MASS SPECTROMETRY, 58(2).

By: Y. Xi n, A. Sohn n, A. Joignant n, S. Cologna*, B. Prentice* & D. Muddiman n

author keywords: data reporting standards; mass spectrometry imaging
MeSH headings : Research Design; Mass Spectrometry / methods; Ions; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: The goal of this tutorial is to discuss the necessity of establishing a uniform reporting system to communicate MSI data in publications and presentations in a simple format to readily interpret the parameters and baseline outcomes of the data. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: March 13, 2023

2023 article

Time of acquisition and high spatial resolution mass spectrometry imaging (vol 58, e4911, 2023)

Muddiman, D. C. (2023, May). JOURNAL OF MASS SPECTROMETRY, Vol. 58.

By: D. Muddiman n

Sources: Web Of Science, ORCID
Added: May 15, 2023

2023 journal article

Transforming a Mid-infrared Laser Profile from Gaussian to a Top- Hat with a Diffractive Optical Element for Mass Spectrometry Imaging

JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, 34(1), 10–16.

By: H. Bai n, J. Manni Sr & D. Muddiman n

author keywords: diffractive optical element; top-hat; infrared; IR-MALDESI; 3D MSI
MeSH headings : Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods; Spectrometry, Mass, Electrospray Ionization / methods; Lasers; Light
UN Sustainable Development Goal Categories
7. Affordable and Clean Energy (OpenAlex)
Sources: Web Of Science, ORCID
Added: January 30, 2023

2022 journal article

An adaptive teosinte mexicana introgression modulates phosphatidylcholine levels and is associated with maize flowering time

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 119(27).

By: A. Barnes n, F. Rodriguez-Zapata n, K. Juarez-Nunez, D. Gates*, G. Janzen*, A. Kur n, L. Wang*, S. Jensen* ...

Contributors: P. Thompson n

author keywords: phospholipid metabolism; maize genetics; highland adaptation; flowering time; selection
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
15. Life on Land (Web of Science; OpenAlex)
Sources: Web Of Science, ORCID
Added: August 3, 2022

2022 journal article

Developing transmission mode for infrared matrix-assisted laser desorption electrospray ionization mass spectrometry imaging

RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 36(22).

By: A. Joignant n, H. Bai n, J. Guymon n, K. Garrard n, M. Pankow n & D. Muddiman n

MeSH headings : Animals; Glycerol; Ice; Lasers; Mammals; Mice; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: This work has successfully demonstrated the adaptation of the NextGen IR‐MAL DESI source through the feasibility of tm‐IR‐MALDESI mass spectrometry imaging on mammalian tissue, expanding future biological applications of the method. (via Semantic Scholar)
UN Sustainable Development Goal Categories
7. Affordable and Clean Energy (OpenAlex)
Sources: Web Of Science, ORCID
Added: September 26, 2022

2022 journal article

Development and validation of a high resolving power absolute quantitative per- and polyfluoroalkyl substances method incorporating Skyline data processing

RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 36(11).

By: J. Enders n, R. Weed n, E. Griffith n & D. Muddiman n

MeSH headings : Chromatography, Liquid; Fluorocarbons; Mass Spectrometry / methods; Reproducibility of Results; Software
TL;DR: This method demonstrates the feasibility of performing reproducible absolute quantitation of PFAS on an HRAM platform and does so using an open-source vendor-neutral data processing software to facilitate sharing of data across labs and institutions. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: April 4, 2022

2022 journal article

Glycerate from intestinal fructose metabolism induces islet cell damage and glucose intolerance

CELL METABOLISM, 34(7), 1042-+.

By: Y. Wu, C. Wong, E. Chiles, A. Mellinger*, H. Bae, S. Jung, T. Peterson, J. Wang ...

MeSH headings : Blood Glucose; Diabetes Mellitus, Type 2; Diet, High-Fat / adverse effects; Dietary Fats / pharmacology; Fructose / metabolism; Glucose / metabolism; Glucose Intolerance / metabolism; Humans; Insulin / metabolism; Islets of Langerhans / metabolism
TL;DR: It is reported that dietary fat enhances intestinal fructose metabolism, which releases glycerate into the blood, which provides a link between dietary fructose and diabetes that is modulated by dietary fat. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 8, 2022

2022 article

Highlighting Functional Mass Spectrometry Imaging Methods in Bioanalysis

Mellinger, A. L., Muddiman, D. C., & Gamcsik, M. P. (2022, June 27). JOURNAL OF PROTEOME RESEARCH, Vol. 6.

By: A. Mellinger n, D. Muddiman n & M. Gamcsik n

author keywords: mass spectrometry imaging; kinetics; rate; isotope; metabolism; dynamics
MeSH headings : Magnetic Resonance Imaging; Mass Spectrometry / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: MSI exceeds some of the classic functional imaging methods, demonstrating the ability to provide functional data from the nanoscale (subcellular) to whole tissue or organ level, and this Perspective highlights several examples of how different MSI ionization and detection technologies can provide unprecedented detailed spatial maps of time-dependent biological processes. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: July 11, 2022

2022 journal article

Improved spatial resolution of infrared matrix-assisted laser desorption electrospray ionization mass spectrometry imaging using a reflective objective

RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 36(23).

By: A. Joignant n, H. Bai n, J. Manni & D. Muddiman n

MeSH headings : Animals; Spectrometry, Mass, Electrospray Ionization / methods; Ice; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods; Lasers; Mammals
Sources: Web Of Science, ORCID
Added: October 17, 2022

2022 journal article

Interrogating the Metabolomic Profile of Amyotrophic Lateral Sclerosis in the Post-Mortem Human Brain by Infrared Matrix-Assisted Laser Desorption Electrospray Ionization (IR-MALDESI) Mass Spectrometry Imaging (MSI)

METABOLITES, 12(11).

By: A. Sohn n, L. Ping*, J. Glass*, N. Seyfried*, E. Hector n & D. Muddiman n

author keywords: IR-MALDESI MSI; mass spectrometry imaging; Amyotrophic lateral sclerosis (ALS); neurodegenerative disease; multiomic
TL;DR: This work is the first of its kind, reporting on the investigation of ALS post-mortem human brain tissue analyzed by multiomic MSI, and nearly 300 metabolites were identified across the sixteen samples where 25 were identified as dysregulated between disease cohorts. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: January 3, 2023

2022 journal article

Mapping glycine uptake and its metabolic conversion to glutathione in mouse mammary tumors using functional mass spectrometry imaging

FREE RADICAL BIOLOGY AND MEDICINE, 193, 677–684.

By: A. Mellinger n, R. Kibbe n, Z. Rabbani n, D. Meritet n, D. Muddiman n & M. Gamcsik n

MeSH headings : Mice; Animals; Glycine; Biological Transport; Glutathione; Mammary Neoplasms, Animal; Mass Spectrometry
TL;DR: A novel functional mass spectrometry imaging (fMSI) method that can map the variations in the conversion of glycine to glutathione metabolic activity across tumor tissue sections by tracking the fate of three glycine isotopologues administered in a timed sequence to tumor-bearing anesthetized mice is developed. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: January 23, 2023

2022 journal article

Mass Spectrometry Imaging of N-Linked Glycans in a Formalin-Fixed Paraffin-Embedded Human Prostate by Infrared Matrix-Assisted Laser Desorption Electrospray Ionization

JOURNAL OF PROTEOME RESEARCH, 21(1), 243–249.

By: C. Pace n, P. Angel*, R. Drake* & D. Muddiman n

author keywords: IR-MALDESI; N-linked glycans; mass spectrometry imaging; prostate cancer
MeSH headings : Formaldehyde / chemistry; Humans; Lasers; Male; Paraffin Embedding; Polysaccharides / chemistry; Prostate / chemistry; Spectrometry, Mass, Electrospray Ionization; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: This work demonstrates the first steps in N-linked glycan imaging of biological tissues by IR-MALDESI MSI, a hybrid ionization technique commonly used for mass spectrometry imaging (MSI) applications. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: February 7, 2022

2022 journal article

Multimodal Mass Spectrometry Imaging of Rat Brain Using IR-MALDESI and NanoPOTS-LC-MS/MS

JOURNAL OF PROTEOME RESEARCH, 21(3), 713–720.

By: C. Pace n, J. Simmons*, R. Kelly* & D. Muddiman n

author keywords: multimodal mass spectrometry imaging; multiomic analyses; IR-MALDESI; nanoPOTS-LC-MS/MS
MeSH headings : Animals; Brain / diagnostic imaging; Chromatography, Liquid / methods; Proteome; Proteomics; Rats; Spectrometry, Mass, Electrospray Ionization; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods; Tandem Mass Spectrometry
TL;DR: A multiomic pathway integration showed a strong correlation between the two data sets when comparing average abundances of metabolites and corresponding enzymes in each brain region, and the first steps in the creation of a multimodal MSI technique that combines two highly sensitive and complementary imaging platforms are demonstrated. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: May 2, 2022

2022 journal article

Multiple Infusion Start Time Mass Spectrometry Imaging of Dynamic SIL-Glutathione Biosynthesis Using Infrared Matrix-Assisted Laser Desorption Electrospray Ionization

JOURNAL OF PROTEOME RESEARCH, 21(3), 747–757.

By: A. Mellinger n, K. Garrard n, S. Khodjaniyazova n, Z. Rabbani n, M. Gamcsik n & D. Muddiman n

author keywords: IR-MALDESI; mass spectrometry imaging; stable isotope labeling; glutathione; kinetic metabolism
MeSH headings : Animals; Glutathione; Glycine; Lasers; Mice; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: A study combining a multiple infusion start time protocol, stable isotope labeling technology, infrared matrix-assisted laser desorption electrospray ionization, and high-resolution accurate mass-mass spectrometry imaging to study spatial changes in glutathione kinetics across in sectioned mouse liver tissues is presented. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: May 2, 2022

2022 article

Next-Generation Infrared Matrix-Assisted Laser Desorption Electrospray Ionization Source for Mass Spectrometry Imaging and High-Throughput Screening

Knizner, K. T., Guymon, J. P., Garrard, K. P., Bouvree, G., Manni, J., Hauschild, J.-P., … Muddiman, D. C. (2022, September 29). JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, Vol. 9.

By: K. Knizner n, J. Guymon n, K. Garrard n, G. Bouvree, J. Manni, J. Hauschild*, K. Strupat*, K. Fort* ...

author keywords: IR-MALDESI; High-Throughput Screening; Mass Spectrometry Imaging; Orbitrap Mass Spectrometer; Design of Experiments
MeSH headings : High-Throughput Screening Assays; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods; Lasers
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: October 17, 2022

2022 journal article

Normalization techniques for high-throughput screening by infrared matrix-assisted laser desorption electrospray ionization mass spectrometry

JOURNAL OF MASS SPECTROMETRY, 57(6).

By: K. Knizner n, M. Bagley n, F. Pu*, N. Elsen*, J. Williams* & D. Muddiman n

author keywords: high-throughput screening; IR-MALDESI; normalization; Orbitrap mass spectrometer
MeSH headings : Drug Discovery; High-Throughput Screening Assays; Lasers; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: Optimal solvent compositions for increasing measured analyte abundances with direct analysis by IR‐MALDESI‐MS are reported and normalization strategies, such as adding a normalization standard that is similar or dissimilar in structure to the model target drug, are evaluated. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: June 20, 2022

2022 journal article

Novel matrix strategies for improved ionization and spatial resolution using IR-MALDESI mass spectrometry imaging

JOURNAL OF MASS SPECTROMETRY, 57(8).

By: R. Kibbe n, A. Mellinger n & D. Muddiman n

author keywords: energy-absorbing matrix; glycerol; IR-MALDESI; mass spectrometry imaging
MeSH headings : Animals; Glycerol; Ice; Lipids; Rats; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: It was observed that utilizing a 50% glycerol matrix without ice provides improved spatial resolution with lipid abundances and annotations comparable to the ice matrix standard, while decreasing the time required to complete an IR‐MALDESI tissue imaging experiment. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 8, 2022

2022 journal article

On the importance of color in mass spectrometry imaging

JOURNAL OF MASS SPECTROMETRY, 57(12).

By: K. Knizner n, R. Kibbe n, K. Garrard n, J. Nunez*, C. Anderton* & D. Muddiman n

author keywords: colormap; CVD; data visualization; MSI
MeSH headings : Humans; Mass Spectrometry
TL;DR: Best practices for choosing a colormap to accurately display MSI data, improve readability, and accommodate all CVDs are presented. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: January 9, 2023

2022 journal article

Optimized C-Trap Timing of an Orbitrap 240 Mass Spectrometer for High-Throughput Screening and Native MS by IR-MALDESI

JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, 33(2), 328–334.

By: K. Knizner n, M. Bagley n, K. Garrard n, J. Hauschild*, F. Pu*, N. Elsen*, J. Williams*, D. Muddiman n

author keywords: high-throughput screening; IR-MALDESI; Orbitrap mass spectrometer; C-trap
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: March 7, 2022

2022 article

Phosphorylation-dependent proteome of Marcks in ependyma during aging and behavioral homeostasis in the mouse forebrain

Muthusamy, N., Williams, T. I., O'Toole, R., Brudvig, J. J., Adler, K. B., Weimer, J. M., … Ghashghaei, H. T. (2022, January 24). GEROSCIENCE, Vol. 1.

By: N. Muthusamy n, T. Williams n, R. O'Toole*, J. Brudvig*, K. Adler n, J. Weimer*, D. Muddiman n, H. Ghashghaei n

Contributors: N. Muthusamy n, T. Williams n, R. O’Toole*, J. Brudvig*, K. Adler n, J. Weimer*, D. Muddiman n, H. Ghashghaei n

author keywords: Aging; Behavior; Clca3; Ependymal cells; Forebrain; Marcks; Mass spectrometry; Neuroinflammation
MeSH headings : Mice; Animals; Phosphorylation; Ependyma / metabolism; Intracellular Signaling Peptides and Proteins / metabolism; Myristoylated Alanine-Rich C Kinase Substrate / metabolism; Proteome / metabolism; Membrane Proteins / metabolism; Protein Kinase C / metabolism; Homeostasis; Prosencephalon / metabolism; Mammals / metabolism
TL;DR: This study provides first line of evidence for potential mechanisms that may mediate differential Marcks functions in young and old ECs, and their effect on forebrain homeostasis during aging. (via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation (OpenAlex)
Sources: Web Of Science, ORCID
Added: January 31, 2022

2021 journal article

Enhancing Metabolomic Coverage in Positive Ionization Mode Using Dicationic Reagents by Infrared Matrix-Assisted Laser Desorption Electrospray Ionization

METABOLITES, 11(12).

By: Y. Xi n & D. Muddiman n

author keywords: metabolites; dicationic reagent; ambient ionization; IR-MALDESI; mass spectrometry imaging
Sources: Web Of Science, ORCID
Added: January 10, 2022

2021 journal article

Enzyme Complexes of Ptr4CL and PtrHCT Modulate Co-enzyme A Ligation of Hydroxycinnamic Acids for Monolignol Biosynthesis in Populus trichocarpa

FRONTIERS IN PLANT SCIENCE, 12.

By: C. Lin n, Y. Sun*, J. Song n, H. Chen n, R. Shi n, C. Yang n, J. Liu n, S. Tunlaya-Anukit n ...

author keywords: protein interaction; monolignol biosynthesis; wood formation; Populus trichocarpa; BiFC; metabolic flux
TL;DR: It is proposed that Ptr4CL/PtrHCT complexes modulate the metabolic flux of CoA ligation for monolignol biosynthesis during wood formation in P. trichocarpa. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: November 8, 2021

2021 journal article

GlycoHunter: An Open-Source Software for the Detection and Relative Quantification of INLIGHT-Labeled N-Linked Glycans

JOURNAL OF PROTEOME RESEARCH, 20(4), 1855–1863.

By: J. Kalmar n, K. Garrard n & D. Muddiman n

author keywords: glycomics; INLIGHT; N-linked glycans; data analysis; open source; software
TL;DR: GlycoHunter, a user-friendly software created in MATLAB that enables researchers to accurately and efficiently process MS1 glycomics data where a NAT and SIL pair is generated for relative quantification, including but not limited to, INLIGHT. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: May 3, 2021

2021 journal article

In situ detection of fatty acid C=C positional isomers by coupling on-tissue mCPBA epoxidation with infrared matrix-assisted laser desorption electrospray ionization mass spectrometry

RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 35(13).

By: A. Tu n, K. Garrard n, N. Said* & D. Muddiman n

TL;DR: The on-tissue mCPBA epoxidation was implemented into an ambient MS imaging workflow to offer a rapid and simple way for in situ identification and relative quantification of double bond positional isomers without the requirement for instrument modification. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: July 6, 2021

2021 journal article

Investigations of beta-carotene radical cation formation in infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI)

RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 35(16).

By: M. Bagley n & D. Muddiman n

MeSH headings : Cations / analysis; Cations / chemistry; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods; Tandem Mass Spectrometry; beta Carotene / analysis; beta Carotene / chemistry
TL;DR: There are several potential mechanisms for β-carotene radical cationization prior to IR-MALDESI analysis with multiphoton-ionization, thermal degradation, and/or reaction with oxygen, but changing certain aspects of sample conditions can result in significant mixed-mode ionization with competing protonation. (via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation (OpenAlex)
Sources: Web Of Science, ORCID
Added: July 26, 2021

2021 article

Obituary Michael S. Bereman (1981-2021)

Muddiman, D. C., & MacCoss, M. J. (2021, May 5). JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, Vol. 32, pp. 1272–1274.

By: D. Muddiman n & M. MacCoss*

UN Sustainable Development Goal Categories
9. Industry, Innovation and Infrastructure (OpenAlex)
Sources: Web Of Science, ORCID
Added: June 10, 2021

2021 journal article

Spatially resolved metabolomic characterization of muscle invasive bladder cancer by mass spectrometry imaging

METABOLOMICS, 17(8).

By: A. Tu n, N. Said* & D. Muddiman n

author keywords: Bladder cancer; IR-MALDESI mass spectrometry imaging; Metabolomics; Lipidomics; Intratumor heterogeneity
MeSH headings : Feasibility Studies; Humans; Metabolomics / methods; Muscle, Smooth / metabolism; Muscle, Smooth / pathology; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods; Urinary Bladder Neoplasms / diagnostic imaging; Urinary Bladder Neoplasms / metabolism; Urinary Bladder Neoplasms / pathology
TL;DR: Great promise is demonstrated of IR-MALDESI MSI to identify molecular changes derived from cancer and unveil tumor heterogeneity, which can potentially promote the discovery of clinically relevant biomarkers and allow for applications in precision medicine. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 2, 2021

2021 article

The development and application of matrix assisted laser desorption electrospray ionization: The teenage years

Bagley, M. C., Garrard, K. P., & Muddiman, D. C. (2021, May 24). MASS SPECTROMETRY REVIEWS, Vol. 5.

By: M. Bagley n, K. Garrard n & D. Muddiman n

author keywords: ambient ionization; direct analysis; FTMS; IR lasers; MALDESI; mass spectrometry imaging; MSiReader
MeSH headings : Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods; Lasers
TL;DR: This review will discuss the developments of MALDESI since its first laboratory demonstration in 2005 to the most recent advances in 2021. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: June 10, 2021

2021 journal article

Three-dimensional (3D) imaging of lipids in skin tissues with infrared matrix-assisted laser desorption electrospray ionization (MALDESI) mass spectrometry

ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 413(10), 2793–2801.

By: H. Bai n, K. Linder n & D. Muddiman n

author keywords: 3D; Mass spectrometry imaging; IR-MALDESI; Skin; Lipids
MeSH headings : Animals; Imaging, Three-Dimensional / methods; Lipids / analysis; Mice; Mice, Hairless; Skin / chemistry; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: The use of infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI) in ablation-based 3D MSI for analyses of lipids within fresh frozen skin tissue is described. (via Semantic Scholar)
UN Sustainable Development Goal Categories
7. Affordable and Clean Energy (OpenAlex)
Sources: Web Of Science, ORCID
Added: January 25, 2021

2021 article

Understanding the electrospray ionization response factors of per- and poly-fluoroalkyl substances (PFAS)

Enders, J. R., Grace M. O'Neill, Whitten, J. L., & Muddiman, D. C. (2021, July 21). ANALYTICAL AND BIOANALYTICAL CHEMISTRY, Vol. 7.

By: J. Enders n, . Grace M. O'Neill n, J. Whitten n & D. Muddiman n

author keywords: Electrospray ionization; PFAS; logP; Surface activity
TL;DR: A method for predicting the behavior of individual PFAS compounds, including relative retention order in chromatography, is presented which is simply based on the number of fluorine atoms in the molecule as well as the class of the compound. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 2, 2021

2021 article

Utilizing liquid chromatography, ion mobility spectrometry, and mass spectrometry to assess INLIGHT (TM) derivatized N-linked glycans in biological samples

Butler, K. E., Kalmar, J. G., Muddiman, D. C., & Baker, E. S. (2021, August 4). ANALYTICAL AND BIOANALYTICAL CHEMISTRY, Vol. 8.

By: K. Butler n, J. Kalmar n, D. Muddiman n & E. Baker n

author keywords: Glycomics; Ion mobility spectrometry; INLIGHT (TM); N-Linked glycans; LC-IMS-MS
TL;DR: The combination of IMS and the natural (NAT) and stable-isotope label (SIL) in the INLIGHT™ strategy provided additional confidence for each glycan identification due to the mobility aligned NAT- and SIL-labeled glycans and further capabilities for isomer examinations. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 16, 2021

2020 journal article

3D Imaging and metabolomic profiling reveal higher neuroactive kavalactone contents in lateral roots and crown root peels of Piper methysticum (kava)

GIGASCIENCE, 9(9).

author keywords: kava; kavalactones; metabolomics; 3D imaging; mass spectrometry imaging
MeSH headings : Imaging, Three-Dimensional; Kava; Lactones; Metabolomics; X-Ray Microtomography
TL;DR: Detailed metabolomic profile and spatio-temporal characteristics of tissues from the roots and stems are characterized using cross-platform metabolomics and a 3D imaging approach to provide mechanistic insights into the social and clinical practice of the use of only peeled roots. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: November 16, 2020

2020 journal article

A Versatile Platform for Mass Spectrometry Imaging of Arbitrary Spatial Patterns

Journal of the American Society for Mass Spectrometry, 31(12), 2547–2552.

By: K. Garrard n, M. Ekelöf n, S. Khodjaniyazova n, M. Bagley n & D. Muddiman n

author keywords: Mass Spectrometry Imaging; Arbitrary Region of Interest; MALDESI; Vision-System
TL;DR: A vision-system driven platform, RastirX, has been constructed for mass spectrometry imaging (MSI) of arbitrary two-dimensional patterns that reduces contamination from off-sample material and significantly reduces acquisition time. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID, Crossref
Added: January 19, 2021

2020 journal article

Analysis of neurotransmitters in rat placenta exposed to flame retardants using IR-MALDESI mass spectrometry imaging

ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 412(15), 3745–3752.

By: C. Pace n, B. Horman n, H. Patisaul n & D. Muddiman n

author keywords: IR-MALDESI; Mass spectrometry imaging; Neurotransmitters; Exposomics
MeSH headings : Animals; Female; Flame Retardants / adverse effects; Infrared Rays; Neurotransmitter Agents / analysis; Optical Imaging / instrumentation; Optical Imaging / methods; Placenta / chemistry; Placenta / diagnostic imaging; Pregnancy; Rats; Rats, Wistar; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / instrumentation; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: Changes in the abundance and spatial distribution of neurotransmitters in rat placenta following chemical exposure could be determined using infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI) mass spectrometry imaging. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: June 1, 2020

2020 journal article

Comparative Proteomic Analysis of Wild Type and Mutant Lacking an SCF E3 Ligase F-Box Protein in Magnaporthe oryzae

JOURNAL OF PROTEOME RESEARCH, 19(9), 3761–3768.

By: J. Kalmar n, Y. Oh n, R. Dean n & D. Muddiman n

MeSH headings : Ascomycota; F-Box Proteins / genetics; Fungal Proteins / genetics; Magnaporthe / metabolism; Proteomics; Ubiquitin-Protein Ligases / genetics
TL;DR: A label-free quantitative global proteomics technique was used to probe the role of ubiquitination and phosphorylation in the mechanism of how E3 ligase regulates change in virulence of M. oryzae and greatly assist in the selection of future genes for functional studies and enabling mechanistic insight related to virulence. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: October 5, 2020

2020 journal article

Coupling IR-MALDESI with Drift Tube Ion Mobility-Mass Spectrometry for High-Throughput Screening and Imaging Applications

Journal of the American Society for Mass Spectrometry, 31(3), 642–650.

By: M. Ekelöf n, J. Dodds n, S. Khodjaniyazova n, K. Garrard n, E. Baker n & D. Muddiman n

author keywords: mass spectrometry imaging; ion mobility spectrometry; IR-MALDESI; high-throughput; isomer resolution
TL;DR: To increase a range of detectable features in IR-MALDESI experiments, the home-built ion source was integrated with a commercially available drift tube ion mobility spec-trometer-mass spectrometer (IMS-MS) and analyzed small polar molecules, lipids, carbohydrates as well as intact proteins. (via Semantic Scholar)
Sources: Crossref, ORCID, Web Of Science
Added: March 23, 2020

2020 journal article

Determination of Optimal Electrospray Parameters for Lipidomics in Infrared-Matrix-Assisted Laser Desorption Electrospray Ionization Mass Spectrometry Imaging

JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, 31(2), 319–325.

By: M. Bagley n, M. Ekelof n & D. Muddiman n

author keywords: IR-MALDESI; mass spectrometry imaging: electrospray ionization; metabolites; lipids
MeSH headings : Animals; Lipidomics / methods; Lipids / analysis; Liver / chemistry; Liver / diagnostic imaging; Molecular Imaging / methods; Rats; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: Using these defined parameters, IR-MALDESI positive polarity lipidomics studies can increase lipid abundances 3-fold, with 15% greater coverage, while an abundance increase of 1.5-fold and 10% more coverage can be achieved relative to commonly used parameters in negative polarity. (via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation (OpenAlex)
Sources: Web Of Science, ORCID
Added: March 10, 2020

2020 journal article

Development of a relative quantification method for infrared matrix-assisted laser desorption electrospray ionization mass spectrometry imaging of Arabidopsis seedlings

RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 34(6).

By: M. Bagley n, A. Stepanova n, M. Ekelof n, J. Alonso n & D. Muddiman n

MeSH headings : Arabidopsis / chemistry; Arabidopsis / genetics; Arabidopsis Proteins / genetics; Indoleacetic Acids / analysis; Indoles / analysis; Mutation; Oximes / analysis; Oxygenases / genetics; Seedlings / chemistry; Seedlings / genetics; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: IAA doping of agarose was demonstrated as a viable technique for relative quantification of metabolites in live seedlings or tissues with similar biological considerations and was shown to be an appropriate sampling surface for IR-MALDESI mass spectrometry imaging of Arabidopsis seedlings. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: March 10, 2020

2020 journal article

Direct Analysis of Native N-Linked Glycans by IR-MALDESI

JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, 31(8), 1759–1762.

By: C. Pace n & D. Muddiman n

author keywords: IR-MALDESI; N-linked glycans; glycomics; direct analysis
TL;DR: This study sought to demonstrate infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI) as a novel approach for the direct analysis of N-linked glycans. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 31, 2020

2020 journal article

Effects of Prenatal Exposure to a Mixture of Organophosphhate Flame Ritardants on Placental Gene Expression and Serotonergic Innervaion in the Fetal Rat Brain

TOXICOLOGICAL SCIENCES, 176(1), 203–223.

By: K. Rock n, G. St Armour n, B. Horman n, A. Phillips*, M. Ruis*, A. Stewart n, D. Jima n, D. Muddiman n, H. Stapleton*, H. Patisaul n

author keywords: endocrine disruptors; endocrine toxicology; flame retardants; metabolome; neurotoxicity; developmental; neurotoxicology; neurotransmitter; developmental toxicity; prenatal; reproductive and developmental toxicology; developmental/teratology
MeSH headings : Animals; Brain / drug effects; Female; Fetal Development; Fetus; Flame Retardants / toxicity; Gene Expression; Humans; Male; Organophosphates; Organophosphorus Compounds; Placenta / metabolism; Plasticizers; Polybrominated Biphenyls; Pregnancy; Prenatal Exposure Delayed Effects; Rats; Rats, Wistar; Serotonin / metabolism
TL;DR: Findings suggest that OPFRs have the potential to impact the 5-HTergic system in the fetal forebrain by disrupting placental Trp metabolism. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (OpenAlex)
Sources: Web Of Science, ORCID
Added: December 14, 2020

2020 journal article

Enhanced protocol for quantitativeN-linked glycomics analysis using Individuality Normalization when Labeling with Isotopic Glycan Hydrazide Tags (INLIGHT)(TM)

ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 412(27), 7569–7579.

By: J. Kalmar n, K. Butler n, E. Baker n & D. Muddiman n

author keywords: Glycomics; Orbitrap; Sample preparation; INLIGHT (TM); N-linked glycans; HILIC; PGC; Reversed-phase; Chromatography
MeSH headings : Chromatography, Reverse-Phase / methods; Female; Fetuins / chemistry; Glycomics / methods; Glycosylation; Humans; Male; Peptide-N4-(N-acetyl-beta-glucosaminyl) Asparagine Amidase / chemistry; Polysaccharides / analysis; Tandem Mass Spectrometry / methods
TL;DR: To assess the maximum sensitivity and separability of the INLIGHT™ preparation and analysis pipeline, several critical steps were investigated and the identification of low-abundance glycans, such as (Fuc)1(Gal)2(GlcNAc)4(Man)3(NeuAc)3, was possible. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: September 14, 2020

2020 journal article

Infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI) mass spectrometry imaging analysis of endogenous metabolites in cherry tomatoes

ANALYST, 145(16), 5516–5523.

By: M. Bagley, C. Pace*, M. Ekelof* & D. Muddiman n

MeSH headings : Lasers; Lipids; Solanum lycopersicum; Spectrometry, Mass, Electrospray Ionization; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization
TL;DR: The spatially resolved metabolic profiling of cherry tomatoes using infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI), a mass spectrometry imaging technique that operates at ambient conditions and requires no sample derivatization, finds endogenous carotenoid hydrocarbons ionized as radical cations. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 31, 2020

2020 journal article

Investigating host-pathogen meta-metabolic interactions of Magnaporthe oryzae infected barley using infrared matrix-assisted laser desorption electrospray ionization mass spectrometry

ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 412(1), 139–147.

By: J. Kalmar n, Y. Oh n, R. Dean n & D. Muddiman n

author keywords: IR-MALDESI; Mass spectrometry imaging; Orbitrap; Magnaporthe oryzae; Image recognition; Polarity switching
MeSH headings : Hordeum / metabolism; Hordeum / microbiology; Host-Pathogen Interactions; Infrared Rays; Magnaporthe / metabolism; Magnaporthe / physiology; Metabolomics; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: Serotonin, a barley defense metabolite, was a compound identified in both positive and negative modes, and metabolites in the melanin pathway, important for infection development of M. oryzae were identified but were unable to be confirmed with MS/MS due to their low abundances. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: December 9, 2019

2020 journal article

Lipidomic profiling of single mammalian cells by infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI)

ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 412(29), 8211–8222.

By: Y. Xi n, A. Tu n & D. Muddiman n

author keywords: Single-cell analysis; Lipidome; Mass spectrometry; IR-MALDESI; Orbitrap
MeSH headings : Animals; HeLa Cells; Humans; Limit of Detection; Lipidomics; Rats; Reproducibility of Results; Single-Cell Analysis / methods; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: A rapid and sensitive method for investigating the lipid profiles of isolated single cells using infrared matrix-assisted laser desorption electrospray ionization mass spectrometry (IR-MALDESI-MS), which provides an important basis for future work on differentiation between normal and diseased cells at various developmental states. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: October 12, 2020

2020 journal article

Metabolite Profiling Reveals Predictive Biomarkers and the Absence of beta-Methyl Amino-L-alanine in Plasma from Individuals Diagnosed with Amyotrophic Lateral Sclerosis

JOURNAL OF PROTEOME RESEARCH, 19(8), 3276–3285.

author keywords: amyotrophic lateral sclerosis; biomarkers; BMAA; CZE-MS/MS; metabolites; plasma
MeSH headings : Alanine; Amyotrophic Lateral Sclerosis / diagnosis; Biomarkers; Female; Humans; Male; Mass Spectrometry; Metabolome
TL;DR: The plasma metabolome of 134 patients diagnosed with sporadic amyotrophic lateral sclerosis and 118 individuals deemed healthy was profiled, and two models using the metabolite abundances were developed for the separation of ALS and healthy samples and the prediction of disease progression based on the ALS functional rating score. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: September 14, 2020

2020 journal article

Methods for Cryosectioning and Mass Spectrometry Imaging of Whole-Body Zebrafish

Journal of the American Society for Mass Spectrometry, 31(4), 768–772.

By: W. Stutts n, M. Knuth n, M. Ekelöf n, D. Mahapatra n, S. Kullman n & D. Muddiman n

author keywords: zebrafish; mass spectrometry imaging; cryosectioning; IR-MALDESI; lipids
MeSH headings : Animals; Cryoultramicrotomy / methods; Lipids / analysis; Male; Molecular Imaging; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods; Zebrafish / metabolism
TL;DR: The zebrafish (Danio rerio) is an ideal model for whole animal studies of lipid metabolism and lipid-related disease, and infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI) mass spectrometry imaging (MSI) was applied for direct visualization of lipid and metabolite distributions across various organs in whole-body zebra fish tissue sections. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Crossref, ORCID
Added: February 6, 2021

2020 journal article

Three-Dimensional Imaging with Infrared Matrix-Assisted Laser Desorption Electrospray Ionization Mass Spectrometry

JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, 31(2), 292–297.

By: H. Bai n, S. Khodjaniyazova n, K. Garrard n & D. Muddiman n

author keywords: mass spectrometry imaging; 3D; IR-MALDESI; MUPS; HRAM
MeSH headings : Anti-Ulcer Agents / analysis; Citrates / analysis; Imaging, Three-Dimensional / methods; Omeprazole / analysis; Pharmaceutical Preparations / chemistry; Proton Pump Inhibitors / analysis; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods; Starch / analysis; Tablets, Enteric-Coated / chemistry
UN Sustainable Development Goal Categories
7. Affordable and Clean Energy (OpenAlex)
Sources: Web Of Science, ORCID
Added: March 10, 2020

2019 journal article

Artemisinin Biosynthesis in Non-glandular Trichome Cells of Artemisia annua

Molecular Plant, 12(5), 704–714.

By: R. Judd n, M. Bagley n, M. Li n, Y. Zhu n, C. Lei n, S. Yuzuak n, M. Ekelöf n, G. Pu n ...

author keywords: Artemisia annua; artemisinin; glandular trichome; non-glandular trichome cell
MeSH headings : Artemisia annua / cytology; Artemisia annua / genetics; Artemisia annua / metabolism; Artemisia annua / physiology; Artemisinins / metabolism; Metabolic Engineering; Mutation; Pollination; Trichomes / metabolism
TL;DR: It is reported that non-GT cells of self-pollinated inbred A. annua plants can express the artemisinin biosynthetic pathway and leaves of regenerated gl plantlets biosynthesize artemis inin. (via Semantic Scholar)
Sources: Crossref, ORCID
Added: February 24, 2020

2019 journal article

CAD1 and CCR2 protein complex formation in monolignol biosynthesis in Populus trichocarpa

NEW PHYTOLOGIST, 222(1), 244–260.

By: X. Yan*, J. Liu n, H. Kim*, B. Liu*, X. Huang*, Z. Yang n, Y. Lin*, H. Chen n ...

Contributors: X. Yan*, J. Liu n, H. Kim*, B. Liu*, X. Huang*, Z. Yang n, Y. Lin*, H. Chen n ...

author keywords: co-immunoprecipitation; enzyme activity; monolignol biosynthetic pathway; nuclear magnetic resonance (NMR); Populus trichocarpa; stem-differentiating xylem protein
MeSH headings : Aldehyde Oxidoreductases / genetics; Aldehyde Oxidoreductases / metabolism; Down-Regulation / genetics; Gene Expression Regulation, Plant; Lignin / metabolism; Magnetic Resonance Spectroscopy; Plant Proteins / genetics; Plant Proteins / metabolism; Plants, Genetically Modified; Populus / genetics; Populus / metabolism; RNA Interference; Recombinant Proteins / metabolism; Xylem / metabolism
TL;DR: Evidence is provided for the formation of PtrCAD1/PtrCCR2 protein complexes in monolignol biosynthesis in planta, and biomolecular fluorescence complementation and pull-down/co-immunoprecipitation experiments supported a hypothesis of P Tr trichocarpa heterodimer formation. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: December 17, 2018

2019 journal article

Discovery and quantification of bioactive peptides in fermented cucumber by direct analysis IR-MALDESI mass spectrometry and LC-QQQ-MS

FOOD CHEMISTRY, 271, 715–723.

By: J. Fideler n, S. Johanningsmeier n, M. Ekelof n & D. Muddiman n

author keywords: Lactic acid fermentation; ACE-inhibitory peptides; Isoleucine-proline-proline; Leucine-proline-proline; Valine-proline-proline; Vegetable composition
MeSH headings : Cucumis sativus / chemistry; Fermentation; Peptides / chemistry; Sodium Chloride; Tandem Mass Spectrometry
TL;DR: It is demonstrated that lactic acid bacteria fermentation can enhance bioactive peptide content in vegetables by 3-5 fold in fermented cucumbers compared with acidified cucumbers. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: October 16, 2018

2019 journal article

Discriminating normal regions within cancerous hen ovarian tissue using multivariate hyperspectral image analysis

RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 33(4), 381–391.

By: M. Lakeh*, A. Tu n, D. Muddiman n & H. Abdollahi*

MeSH headings : Animals; Chickens / metabolism; Female; Least-Squares Analysis; Multivariate Analysis; Ovarian Neoplasms / chemistry; Ovarian Neoplasms / diagnosis; Ovarian Neoplasms / pathology; Ovarian Neoplasms / veterinary; Ovary / chemistry; Ovary / pathology; Poultry Diseases / diagnosis; Poultry Diseases / pathology; Principal Component Analysis; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: Two unsupervised chemometric methods including PCA and MCR-ALS were applied for resolving and visualizing IR-MALDESI-MS data acquired from hen ovary tissues, improving the interpretation of mass spectrometry imaging results. (via Semantic Scholar)
UN Sustainable Development Goal Categories
10. Reduced Inequalities (OpenAlex)
Sources: Web Of Science, ORCID
Added: February 18, 2019

2019 journal article

Heterogeneous antiretroviral drug distribution and HIV/SHIV detection in the gut of three species

SCIENCE TRANSLATIONAL MEDICINE, 11(499).

By: C. Thompson*, E. Rosen*, H. Prince*, N. White*, C. Sykes*, G. Cruz*, M. Mathews*, C. Deleage* ...

MeSH headings : ATP Binding Cassette Transporter, Subfamily B, Member 1 / metabolism; Adolescent; Adult; Aged; Animals; Anti-Retroviral Agents / pharmacology; CD3 Complex / metabolism; Female; Gastrointestinal Tract / drug effects; Gastrointestinal Tract / virology; Gene Expression Regulation, Viral / drug effects; HIV / drug effects; HIV / genetics; Humans; Macaca mulatta; Male; Mice; Middle Aged; RNA, Viral / genetics; RNA, Viral / metabolism; Simian Immunodeficiency Virus / drug effects; Simian Immunodeficiency Virus / genetics; Species Specificity; T-Lymphocytes / drug effects; Young Adult
TL;DR: There may be gut regions with little to no exposure to antiretroviral drugs, which may result in low-level HIV replication contributing to HIV persistence. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 5, 2019

2019 journal article

Internal Energy Deposition in Infrared Matrix-Assisted Laser Desorption Electrospray Ionization With and Without the Use of Ice as a Matrix

JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, 30(11), 2380–2391.

By: A. Tu n & D. Muddiman n

author keywords: Internal energy deposition; IR-MALDESI; Mass spectrometry imaging; Survival yield method; Thermometer ions; Ambient ionization
TL;DR: Measurements with holo-myoglobin show that IR-MALDESI-MS retains the noncovalently bound heme-protein complexes under both native-like and denaturing conditions, while complete loss of the heme group occurred in denatured ESI-MS, showing that the softness of IR-MalDESI is equivalent or superior to ESI for biomolecules. (via Semantic Scholar)
UN Sustainable Development Goal Categories
7. Affordable and Clean Energy (OpenAlex)
Sources: Web Of Science, ORCID
Added: November 25, 2019

2019 journal article

Label-Free Quantitative Proteomics of Enriched Nuclei from Sugarcane (Saccharum ssp) Stems in Response to Drought Stress

PROTEOMICS, 19(14).

By: F. Salvato*, P. Loziuk n, E. Kiyota*, G. Daneluzzi*, P. Araujo*, D. Muddiman n, P. Mazzafera*

author keywords: drought; RNA regulation; Saccharum spp; shotgun proteomics; transcription factors
MeSH headings : Droughts; Gene Expression Regulation, Plant; Plant Proteins / metabolism; Proteomics; Saccharum / metabolism
TL;DR: The integration of nuclei enrichment sample preparation with the shotgun proteomic approach results in great coverage of the sugarcane stem proteome with 5381 protein groups identified, indicating that drought affects negatively the cell wall metabolism. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID
Added: July 22, 2019

2019 journal article

Mass spectrometry imaging (MSI) of fresh bones using infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI)

ANALYTICAL METHODS, 11(46), 5929–5938.

By: S. Khodjaniyazova n, N. Hanne n, J. Cole n & D. Muddiman n

MeSH headings : Animals; Diagnostic Imaging; Lasers; Mice; Spectrometry, Mass, Electrospray Ionization; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization
TL;DR: An effective strategy for direct analysis and two-dimensional matrix-assisted laser desorption electrospray ionization (IR-MALDESI) mass spectrometry imaging (MSI) of mouse bones that underwent no chemical treatments prior to analysis is reported. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: December 16, 2019

2019 journal article

NIST Interlaboratory Study on Glycosylation Analysis of Monoclonal Antibodies: Comparison of Results from Diverse Analytical Methods

Molecular & Cellular Proteomics, 19(1), 11–30.

By: M. De Leoz*, D. Duewer*, A. Fung, L. Liu, H. Yau, O. Potter*, G. Staples*, K. Furuki* ...

author keywords: Glycomics; mass spectrometry; fluorescence; glycosylation; glycoproteins; glycan; glycopeptide; interlaboratory study; NISTmAb; reference antibody
MeSH headings : Antibodies, Monoclonal / chemistry; Antibodies, Monoclonal / metabolism; Biological Products; Biopharmaceutics / methods; Glycomics / methods; Glycopeptides / metabolism; Glycosylation; Humans; Laboratories; Polysaccharides / metabolism; Protein Processing, Post-Translational; Proteomics / methods
TL;DR: A broad-based interlaboratory study of glycosylation profiles of a reference and modified IgG antibody involving 103 reports from 76 laboratories offers a view of the current state-of-the-art for biologic glyCosylation measurement and suggests a clear need for harmonization of gly cosylation analysis methods. (via Semantic Scholar)
Sources: Crossref, ORCID
Added: May 11, 2020

2019 journal article

Quantitative proteomic analysis of tomato genotypes with differential cadmium tolerance

ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH, 26(25), 26039–26051.

By: K. Reis Borges*, F. Salvato*, P. Loziuk n, D. Muddiman n & R. Azevedo*

author keywords: Root proteome; Cd stress; Antioxidant; Redox; Cell wall; Metabolism
MeSH headings : Cadmium / chemistry; Cadmium / metabolism; Cell Wall / metabolism; Drug Tolerance; Genotype; Solanum lycopersicum / metabolism; Plant Roots / metabolism; Proteome / chemistry; Proteome / metabolism; Proteomics; Stress, Physiological / drug effects
TL;DR: Findings could shed some light on the molecular basis underlying the Cd stress response in tomato, providing fundamental insights for the development of Cd-safe cultivars. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (OpenAlex)
Sources: Web Of Science, ORCID
Added: September 23, 2019

2019 journal article

Systematic evaluation of repeatability of IR-MALDESI-MS and normalization strategies for correcting the analytical variation and improving image quality

ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 411(22), 5729–5743.

By: A. Tu n & D. Muddiman n

author keywords: IR-MALDESI; Mass spectrometry imaging; Repeatability; Normalization
MeSH headings : Animals; Chickens; Female; Rats; Reproducibility of Results; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: Results demonstrated that the majority of normalization approaches benefit data quality to some extent, and local normalization methods significantly outperform their global counterparts, resulting in a reduction of median %RSD up to 22. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: September 9, 2019

2018 journal article

A novel integrated strategy for the detection and quantification of the neurotoxin beta-N-methylamino-l-alanine in environmental samples

ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 410(10), 2597–2605.

By: J. Beri n, K. Kirkwood n, D. Muddiman n & M. Bereman n

author keywords: BMAA; CZE; Isomer separation; Quantification; HRAM MS/MS; Seafood
MeSH headings : Amino Acids, Diamino / analysis; Animals; Cyanobacteria Toxins; Environmental Monitoring / methods; Environmental Pollutants / analysis; Fishes / metabolism; Food Analysis / methods; Humans; Limit of Detection; Neurotoxins / analysis; Seafood / analysis; Tandem Mass Spectrometry / methods
TL;DR: Interestingly, BMAA was not identified in the free protein fraction but only detected after protein hydrolysis which suggests that BMAA is tightly bound by and/or incorporated into proteins. (via Semantic Scholar)
UN Sustainable Development Goal Categories
14. Life Below Water (OpenAlex)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2018 journal article

Characterization of a novel miniaturized burst-mode infrared laser system for IR-MALDESI mass spectrometry imaging

ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 410(9), 2395–2402.

By: M. Ekelof n, J. Manni, M. Nazari n, M. Bokhart n & D. Muddiman n

author keywords: Mass spectrometry imaging; Infrared laser; IR-MALDESI; HRAM mass spectrometry
MeSH headings : Animals; Equipment Design; Infrared Rays; Lasers; Mice; Miniaturization / instrumentation; Optical Imaging / instrumentation; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / instrumentation; Whole Body Imaging / instrumentation
TL;DR: The use of a novel miniature 2.94 μm burst-mode laser in IR-MALDESI allows for rapid and sensitive mass spectrometry imaging of a whole mouse, yielding several hundred confident metabolite identifications. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 6, 2018

2018 journal article

Characterization of the Spectral Accuracy of an Orbitrap Mass Analyzer Using Isotope Ratio Mass Spectrometry

Analytical Chemistry, 90(3), 1897–1906.

By: S. Khodjaniyazova n, M. Nazari n, K. Garrard n, M. Matos, G. Jackson & D. Muddiman n

MeSH headings : Caffeine / analysis; Carbon Isotopes / analysis; Nitrogen Isotopes / analysis; Oligopeptides / analysis; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods; Sulfur Isotopes / analysis
TL;DR: It is demonstrated that at optimum absolute ions abundances the Orbitrap can be used to accurately count carbons, nitrogens, and sulfurs in samples with varying masses and absolute monoisotopic ion abundances required for high SA were empirically determined by using the expected and experimental isotopic distributions to calculate the Pearson chi-square test. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Crossref, ORCID
Added: February 21, 2020

2018 journal article

Demonstration of hydrazide tagging for O-glycans and a central composite design of experiments optimization using the INLIGHT (TM) reagent

ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 410(5), 1409–1415.

By: S. King n, E. Hecht n & D. Muddiman n

author keywords: O-glycosylation; Hydrazide tag; Rapid derivatization; Design of experiments
MeSH headings : Chromatography, Liquid; Glycoproteins / chemistry; Hydrazines / chemistry; Mass Spectrometry; Polysaccharides / chemistry
TL;DR: This work has taken the INLIGHT™ strategy for N-linked glycan derivatization and adopted it for use with O-linked glycans, demonstrating successful hydrazide tagging of O-glycans for the first time. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 6, 2018

2018 journal article

Evaluation of Digital Image Recognition Methods for Mass Spectrometry Imaging Data Analysis

Journal of The American Society for Mass Spectrometry, 29(12), 2467–2470.

By: M. Ekelöf n, K. Garrard n, R. Judd n, E. Rosen*, D. Xie n, A. Kashuba*, D. Muddiman n

author keywords: Mass spectrometry imaging; Image recognition; SSIM
MeSH headings : Algorithms; Animals; Image Processing, Computer-Assisted / methods; Lymph Nodes / chemistry; Lymph Nodes / metabolism; Macaca mulatta; Maraviroc / pharmacokinetics; Mass Spectrometry / methods; Models, Theoretical; Molecular Imaging / methods; Plant Leaves / chemistry; Tissue Distribution
TL;DR: A method for comprehensive, semi-targeted discovery of molecular distributions of interest from mass spectrometry imaging data, using widely available image similarity scoring algorithms to rank images by spatial correlation is presented. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID, Crossref
Added: December 10, 2018

2018 journal article

IR-MALDESI mass spectrometry imaging of underivatized neurotransmitters in brain tissue of rats exposed to tetrabromobisphenol A

ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 410(30), 7979–7986.

By: M. Bagley n, M. Ekelof n, K. Rock n, H. Patisaul n & D. Muddiman n

author keywords: IR-MALDESI; Neurotransmitters; Mass spectrometry imaging; Exposomics; Orbitrap
MeSH headings : Animals; Brain; Female; Infrared Rays; Neurotransmitter Agents / chemistry; Polybrominated Biphenyls / toxicity; Rats; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: This study serves as a demonstration of a new application of IR-MALDESI, namely that neurotransmitter distributions can be confidently and rapidly imaged without derivatization, and is used for the analysis of neurotransmitters in the brains of rats exposed to TBBPA in gestation and lactation through their mothers. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (Web of Science; OpenAlex)
Sources: Web Of Science, ORCID
Added: December 3, 2018

2018 journal article

IR-MALDESI method optimization based on time-resolved measurement of ion yields

ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 410(3), 963–970.

By: M. Ekeloef & D. Muddiman n

author keywords: IR-MALDESI; Electrospray post-ionization; Mass spectrometry imaging; Laser ablation; Q Exactive
MeSH headings : Animals; Brain Chemistry; Cholesterol / analysis; Ions / analysis; Laser Therapy / methods; Lipids / analysis; Liver / chemistry; Mice; Rats; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: In a model imaging experiment using infrared matrix-assisted laser desorption electrospray ionization, fixing the injection time at the minimum duration required to capture all ions generated by the last laser pulse in a sequence is shown to maximize target ion abundances. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 6, 2018

2018 journal article

Improving wood properties for wood utilization through multi-omics integration in lignin biosynthesis

Nature Communications, 9(1), 1579.

By: J. Wang n, M. Matthews n, C. Williams n, R. Shi n, C. Yang n, S. Tunlaya-Anukit n, H. Chen n, Q. Li* ...

Contributors: J. Wang n, M. Matthews n, C. Williams n, R. Shi n, C. Yang n, S. Tunlaya-Anukit n, H. Chen n, Q. Li* ...

MeSH headings : Gene Expression Regulation, Plant; Lignin / biosynthesis; Lignin / genetics; Plants, Genetically Modified / genetics; Populus / genetics; Populus / metabolism; Transcriptome / genetics; Trees / genetics; Trees / metabolism; Wood / chemistry; Wood / physiology; Xylem / metabolism
TL;DR: A multi-omics quantitative integrative analysis of lignin biosynthesis can advance the strategic engineering of wood for timber, pulp, and biofuels and may lead to greater understanding of other pathways for improved growth and adaptation. (via Semantic Scholar)
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018

2018 journal article

Jürgen H. Gross: Mass spectrometry: a textbook, 3rd ed.

Analytical and Bioanalytical Chemistry, 410(8), 2051–2052.

By: D. Muddiman n

TL;DR: To effectively make use of modern mass spectrometry for chemical and biological systems, one needs to understand the principles of the technique including ionization methods, mass analyzer technology, and ion dissociation as well as a basic understanding of isotopic distributions and measuring mass. (via Semantic Scholar)
Sources: Crossref, ORCID
Added: February 21, 2020

2018 journal article

Quantitative mass spectrometry imaging of glutathione in healthy and cancerous hen ovarian tissue sections by infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI)

ANALYST, 143(3), 654–661.

By: M. Nazari n, M. Bokhart n, P. Loziuk n & D. Muddiman n

MeSH headings : Animals; Chickens; Chromatography, Liquid; Female; Glutathione / analysis; Ovarian Neoplasms / diagnostic imaging; Ovary / diagnostic imaging; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization; Tandem Mass Spectrometry
TL;DR: A ∼2-fold increase in the concentration of GSH in cancer tissue compared to the healthy tissue was observed using both techniques, and possible reasons for the difference between absolute concentration values obtained using IR-MALDESI QMSI and LC-MS/MS are discussed. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 6, 2018

2017 journal article

Climate projections of spatial variations in coastal storm surges along the Gulf of Mexico and U.S. east coast

Journal of Ocean University of China, 16(1), 1–7.

author keywords: storm surge; sea surface winds; climate change; regional ocean
UN Sustainable Development Goal Categories
13. Climate Action (Web of Science)
14. Life Below Water (Web of Science)
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018

2017 journal article

Comparative proteomic analysis between nitrogen supplemented and starved conditions in Magnaporthe oryzae

Proteome Science, 15(1).

By: Y. Oh n, S. Robertson n, J. Parker n, D. Muddiman n & R. Dean n

author keywords: Proteomics; Magnaporthe oryzae; Nitrogen starvation; Melanin biosynthesis; Extracellular protein
TL;DR: A functional analysis of differentially expressed proteins revealed that during nitrogen starvation nitrogen catabolite repression, melanin biosynthesis, protein degradation and protein translation pathways underwent extensive alterations, consistent with observations of a link between nitrogen starvation and the development of pathogenicity in M. oryzae. (via Semantic Scholar)
Sources: Crossref, ORCID, NC State University Libraries
Added: August 6, 2018

2017 journal article

Cover Image

Rapid Communications in Mass Spectrometry, 31(22), i-i.

By: M. Nazari, M. Ekelöf, S. Khodjaniyazova, N. Elsen, J. Williams & D. Muddiman*

Sources: Crossref, ORCID
Added: February 21, 2020

2017 journal article

DRILL: An Electrospray Ionization-Mass Spectrometry Interface for Improved Sensitivity via Inertial Droplet Sorting and Electrohydrodynamic Focusing in a Swirling Flow

ANALYTICAL CHEMISTRY, 89(17), 8981–8987.

By: P. Kottke*, J. Lee*, A. Jonke*, C. Seneviratne n, E. Hecht n, D. Muddiman n, M. Torres*, A. Fedorov*

MeSH headings : Angiotensin I / analysis; Angiotensin I / metabolism; Angiotensin II / analysis; Angiotensin II / metabolism; Chromatography, High Pressure Liquid; Humans; Isotope Labeling; Limit of Detection; Peptides / analysis; Peptides / chemistry; Spectrometry, Mass, Electrospray Ionization / instrumentation; Spectrometry, Mass, Electrospray Ionization / methods
TL;DR: This work experimentally demonstrates sensitivity improvement obtained via vortex-induced inertial sorting of electrosprayed droplets/ions: one possible mode of DRILL operation. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2017 journal article

Direct analysis of terpenes from biological buffer systems using SESI and IR-MALDESI

Analytical and Bioanalytical Chemistry, 410(3), 953–962.

By: M. Nazari n, A. Malico n, M. Ekelöf n, S. Lund n, G. Williams n & D. Muddiman n

author keywords: Terpenes; IR-MALDESI; SESI; Direct analysis; Biological buffers; Q Exactive Plus
MeSH headings : Alkenes / analysis; Buffers; Infrared Rays; Ions / analysis; Monocyclic Sesquiterpenes; Sesquiterpenes / analysis; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods; Terpenes / analysis
TL;DR: By coupling the two techniques and doping the electrospray solvent with silver ions, olefinic terpenes of different classes and varying degrees of volatility were directly analyzed from a biological buffer system with no sample workup steps. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018

2017 journal article

Direct screening of enzyme activity using infrared matrix-assisted laser desorption electrospray ionization

RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 31(22), 1868–1874.

MeSH headings : Drug Discovery / methods; Enzyme Assays / methods; High-Throughput Screening Assays / methods; Isocitrate Dehydrogenase / metabolism; Isocitrates / metabolism; Ketoglutaric Acids / metabolism; Models, Chemical; NADP / metabolism; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: The utility of infrared matrix-assisted laser desorption electrospray ionization for monitoring an enzymatic reaction directly from a biological buffer system with no sample cleanup and at high throughput is presented. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 6, 2018

2017 journal article

IR-MALDESI Mass Spectrometry Imaging at 50 Micron Spatial Resolution

Journal of The American Society for Mass Spectrometry, 28(10), 2099–2107.

By: M. Bokhart n, J. Manni, K. Garrard n, M. Ekelöf n, M. Nazari n & D. Muddiman n

author keywords: Mass spectrometry imaging; IR-MALDESI; Tissue imaging; Spatial resolution; Laser focusing
TL;DR: This work presents MSI using infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI) at 50 μm resolution, using an adjustable iris, beam expander, and an aspherical focusing lens to reduce tissue ablation diameters for MSI at high resolution. (via Semantic Scholar)
Sources: Crossref, ORCID, Web Of Science
Added: August 6, 2018

2017 article

Imaging antiretroviral distribution within gastrointestinal tissues across pre-clinical species: implications for hiv eradication

Clinical Pharmacology & Therapeutics, Vol. 101, pp. S17–17.

By: C. Thompson, E. Rosen, M. Mathews, N. White, C. Sykes, Y. Fedoriw, P. Charlins, L. Mulder ...

Source: NC State University Libraries
Added: August 6, 2018

2017 journal article

MSiReader v1.0: Evolving Open-Source Mass Spectrometry Imaging Software for Targeted and Untargeted Analyses

Journal of The American Society for Mass Spectrometry, 29(1), 8–16.

By: M. Bokhart, M. Nazari, K. Garrard n & D. Muddiman*

author keywords: Mass spectrometry imaging; Mass spectrometry software; Data analysis; Image processing; High mass resolving power; Open-source; Orbitrap
TL;DR: A major update to the mass spectrometry imaging (MSI) software MSiReader is presented, offering a multitude of newly added features critical to MSI analyses, enabling the MSI community to evaluate their data in greater depth and in less time. (via Semantic Scholar)
Sources: Crossref, ORCID, Web Of Science
Added: August 6, 2018

2017 journal article

Mass spectrometric detection of chlorophyll a and the tetrapyrrole secondary metabolite tolyporphin A in the filamentous cyanobacterium HT-58-2. Approaches to high-throughput screening of intact cyanobacteria

JOURNAL OF PORPHYRINS AND PHTHALOCYANINES, 21(11), 759–768.

By: Y. Zhang n, R. Zhang n, M. Nazari n, M. Bagley n, E. Miller n, P. Williams*, D. Muddiman n, J. Lindsey n

author keywords: IR-MALDESI-FTMS; MS/MS; MALDI-TOF-MS; chlorophyll; bacteriochlorin; high-throughput screening
TL;DR: Examination by MALDI-TOF-MS of lipophilic crude extracts of small-scale HT-58-2 samples without chromatographic fractionation enabled semi-quantitation of tolyporphin A over a 41-day growth period. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2017 journal article

N-linked glycosite profiling and use of Skyline as a platform for characterization and relative quantification of glycans in differentiating xylem of Populus trichocarpa

ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 409(2), 487–497.

By: P. Loziuk n, E. Hecht n & D. Muddiman n

author keywords: N-linked glycosite; Skyline; Populus trichocarpa; Monolignol; N-linked glycans
MeSH headings : Computational Biology / standards; Computational Biology / trends; Polysaccharides / analysis; Populus / chemistry; Xylem / chemistry
TL;DR: This study presents a novel workflow for identification of glycans using Individuality Normalization when Labeling with Isotopic Glycan Hydrazide Tags (INLIGHT™) strategy developed in the lab, and implements Skyline for relative glycan quantification for improved accuracy and precision of quantitative measurements over current processing tools. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2017 journal article

Perfluorinated alcohol induced coacervates as extraction media for proteomic analysis

JOURNAL OF CHROMATOGRAPHY A, 1523, 293–299.

By: J. McCord n, D. Muddiman n & M. Khaledi*

author keywords: Coacervation; Surfactants; Perfluorinated alcohol; Proteomics; Membrane proteins
MeSH headings : Membrane Proteins / isolation & purification; Propanols / chemistry; Proteome / analysis; Proteomics / methods; Saccharomyces cerevisiae / metabolism; Surface-Active Agents / chemistry
TL;DR: A novel method for using hexafluoroisopropanol induced coacervates with a variety of surfactants to extract proteins from a yeast whole cell lysate and conduct a global proteomic investigation on the extracted proteins is described. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 6, 2018

2017 article

Recent advances in glycomics, glycoproteomics and allied topics

Mechref, Y., & Muddiman, D. C. (2017, January). ANALYTICAL AND BIOANALYTICAL CHEMISTRY, Vol. 409, pp. 355–357.

By: Y. Mechref* & D. Muddiman n

TL;DR: The understanding of the attributes of glycans in biological functions and the development and progression of diseases has been facilitated by mass-spectrometry-based glycomics and glycoproteomics, which are dynamic and are rapidly evolving through innovative technologies and bioinformatics. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2017 journal article

The PeptideAtlas of the Domestic Laying Hen

JOURNAL OF PROTEOME RESEARCH, 16(3), 1352–1363.

By: J. McCord n, Z. Sun*, E. Deutsch*, R. Moritz* & D. Muddiman n

author keywords: biomarkers; chicken; ovarian cancer; PeptideAtlas
MeSH headings : Acute-Phase Proteins / analysis; Animals; Biomarkers, Tumor / analysis; Chickens; Data Mining; Female; Proteome / analysis; Proteomics / methods
TL;DR: A PeptideAtlas for the domestic chicken is presented, containing an extensive and robust collection of chicken tissue and plasma samples with substantial value for the chicken proteomics community for protein validation and design of downstream targeted proteome quantitation workflows. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2017 journal article

The scope of Analytical and Bioanalytical Chemistry (ABC)

Analytical and Bioanalytical Chemistry, 410(3), 649–650.

By: H. Cui*, P. Garrigues*, G. Gauglitz*, E. Hilder*, G. Hopfgartner*, D. Muddiman*, A. Roda*, A. Sanz-Medel* ...

TL;DR: Assessing whether an application is within the scope of Analytical and Bioanalytical Chemistry, it is recommended that authors consider whether the major focus of the manuscript is to advance another field and whether the work demonstrates an innovative contribution to the field. (via Semantic Scholar)
Sources: Crossref, ORCID
Added: February 21, 2020

2017 journal article

Xylose Migration During Tandem Mass Spectrometry of N-Linked Glycans

JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, 28(4), 729–732.

By: E. Hecht n, P. Loziuk n & D. Muddiman n

author keywords: Xylose migration; MS/MS; Glycomics; N-linked glycans; Plants
TL;DR: This work reports the second instance of saccharide migration ever to occur for N-glycans, the first empirical observation of this rearrangement, and warrants dissemination so it may be searched in de novo sequencing glycan workflows. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 journal article

A Quantitative Glycomics and Proteomics Combined Purification Strategy

Journal of Visualized Experiments, 3(109).

By: E. Hecht n, J. McCord n & D. Muddiman n

author keywords: Chemistry; Issue 109; Glycomics; proteomics; glycosylation-site analysis; deamidation; hydrazide tagging; relative quantitation
MeSH headings : Animals; Chickens; Chromatography, Liquid / methods; Glycomics / methods; Glycopeptides / analysis; Glycopeptides / blood; Glycosylation; Humans; Mass Spectrometry / methods; Peptides / analysis; Peptides / blood; Polysaccharides / analysis; Polysaccharides / blood; Protein Processing, Post-Translational; Proteins / analysis; Proteomics / methods; Solid Phase Extraction / methods; Swine
TL;DR: A new in-line high-throughput, unbiased, filter based protocol for quantitative glycomics and proteomics analysis and showed that N-glycans purified on filter and derivatized by hydrophobic hydrazide tags were comparable in terms of abundance and class to those by solid phase extraction (SPE); the latter is considered a gold standard in the field. (via Semantic Scholar)
Sources: Crossref, ORCID, NC State University Libraries
Added: August 6, 2018

2016 journal article

A cell wall-bound anionic peroxidase, PtrPO21, is involved in lignin polymerization in Populus trichocarpa

Tree Genetics & Genomes, 12(2).

By: C. Lin n, Q. Li*, S. Tunlaya-Anukit*, R. Shi n, Y. Sun*, J. Wang n, J. Liu n, P. Loziuk n ...

Contributors: C. Lin n, Q. Li*, S. Tunlaya-Anukit*, R. Shi n, Y. Sun*, J. Wang n, J. Liu n, P. Loziuk n ...

author keywords: Lignin polymerization; Populus trichocarpa; Lignin peroxidase; LC-MS/MS; Lignin systems biology
TL;DR: Differentially expressed gene (DEG) analysis of PtrPO21 downregulated transgenics identified a significant overexpression of PtPrx35, suggesting a compensatory effect within the peroxidase family. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Crossref, ORCID, Web Of Science
Added: August 6, 2018

2016 journal article

Analysis of Antiretrovirals in Single Hair Strands for Evaluation of Drug Adherence with Infrared-Matrix-Assisted Laser Desorption Electrospray Ionization Mass Spectrometry Imaging

ANALYTICAL CHEMISTRY, 88(2), 1336–1344.

By: E. Rosen*, C. Thompson*, M. Bokhart n, H. Prince*, C. Sykes*, D. Muddiman n, A. Kashuba*

MeSH headings : Anti-Retroviral Agents / analysis; Hair / chemistry; Infrared Rays; Molecular Structure; Optical Imaging; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization
TL;DR: Evaluated the detectability of HIV antiretrovirals in hair from a range of drug classes using infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI) mass spectrometry imaging (MSI) with 100 μm resolution and an MSI method to quantify the melanin biomarker pyrrole-2,3,5-tricarboxylic acid (PTCA) was evaluated. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 journal article

Composition of Rosenthal Fibers, the Protein Aggregate Hallmark of Alexander Disease

JOURNAL OF PROTEOME RESEARCH, 15(7), 2265–2282.

By: M. Heaven, D. Flint, S. Randall n, A. Sosunov, L. Wilson, S. Barnes, J. Goldman, D. Muddiman n, M. Brenner

author keywords: Rosenthal fiber; Alexander disease; protein aggregates; neurodegenerative disease; astrocyte; proteomics; mass spectrometry (MS); stress granules
MeSH headings : Alexander Disease; Animals; Astrocytes; Cyclin D2 / analysis; DEAD-box RNA Helicases / analysis; GTP-Binding Proteins / analysis; Humans; Immunohistochemistry; Mice; Neoplasm Proteins / analysis; Neuropeptides / analysis; Protein Aggregates; Protein Aggregation, Pathological; Proteome / analysis; RNA Helicases / analysis; Receptors for Activated C Kinase; Receptors, Cell Surface / analysis
TL;DR: No support was obtained for the sequestration hypothesis for AxD, but the association of several of the RF proteins with stress granules suggests a role for stressgranules in the origin of RFs. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 journal article

Direct Analysis of Triterpenes from High-Salt Fermented Cucumbers Using Infrared Matrix-Assisted Laser Desorption Electrospray Ionization (IR-MALDESI)

Journal of The American Society for Mass Spectrometry, 28(2), 370–375.

By: M. Ekelöf n, E. McMurtrie n, M. Nazari n, S. Johanningsmeier n & D. Muddiman n

author keywords: Food preservation; IR-MALDESI; Mass spectrometry imaging; Phytosterols; Direct analysis; HRAM; Fermented vegetable composition; Q Exactive
MeSH headings : Cucumis sativus / chemistry; Fermented Foods / analysis; Food Analysis / methods; Food Storage / methods; Image Processing, Computer-Assisted; Sodium Chloride; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods; Tandem Mass Spectrometry; Triterpenes / analysis; Triterpenes / chemistry
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation (OpenAlex)
Sources: Crossref, ORCID, Web Of Science
Added: August 6, 2018

2016 journal article

Enhanced Lipidome Coverage in Shotgun Analyses by using Gas-Phase Fractionation

JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, 27(11), 1735–1744.

By: M. Nazari n & D. Muddiman n

author keywords: Shotgun lipidomics; Gas-phase fractionation; Lipids; Hen model; Lipid metabolism; Polarity switching; Q Exactive Plus
MeSH headings : Animals; Chickens; Female; Glycerophospholipids; Ions; Lipids / chemistry; Tandem Mass Spectrometry
TL;DR: This comprehensive analysis of the lipidome can serve as a species- and tissue-specific database for confident identification of other MS-based datasets, such as mass spectrometry imaging. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 journal article

Examining ubiquitinated peptide enrichment efficiency through an epitope labeled protein

ANALYTICAL BIOCHEMISTRY, 512, 114–119.

By: J. Parker n, Y. Oh n, Y. Moazami n, J. Pierce n, P. Loziuk n, R. Dean n, D. Muddiman n

author keywords: Ubiquitination; Gly-Gly enrichment; Enrichment efficiency
MeSH headings : Antibodies, Monoclonal, Murine-Derived / chemistry; Epitopes / chemistry; Muramidase / chemistry; Ubiquitinated Proteins / chemistry; Ubiquitination
TL;DR: It is shown that when conjugated to a lysine containing protein, such as lysozyme, it can be applied as a standard protein to examine ubiquitinated peptide enrichment within a complex background. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 journal article

Identification of Epigenetic Factor Proteins Expressed in Human Embryonic Stem Cell-Derived Trophoblasts and in Human Placental Trophoblasts

JOURNAL OF PROTEOME RESEARCH, 15(8), 2433–2444.

By: P. Sarkar n, A. Mischler n, S. Randall n, T. Collier n, K. Dorman*, K. Boggess*, D. Muddiman n, B. Rao n

author keywords: quantitative mass spectrometry; SILAC; human embryonic stem cell; trophoblast; epigenetic factor
MeSH headings : Cell Differentiation; DNA (Cytosine-5-)-Methyltransferases / genetics; Epigenomics; Female; Gene Expression / genetics; Human Embryonic Stem Cells / cytology; Humans; Placenta / chemistry; Placenta / cytology; Pregnancy; Transcription Factors / genetics; Trophoblasts / chemistry; Trophoblasts / cytology
TL;DR: The results support the use of hESC-derived trophoblasts as a model for placental troPHoblasts, which will enable further investigation of epigenetic factors involved in human trophoblast development, and hypothesized that nuclear proteomics of h ESPCs may be used for screening epigenetic factor proteins expressed by primary trophblasts in human placental tissue. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 review

Infrared matrix-assisted laser desorption electrospray ionization mass spectrometry imaging analysis of biospecimens

[Review of ]. ANALYST, 141(18), 5236–5245.

By: M. Bokhart n & D. Muddiman n

MeSH headings : Histocytological Preparation Techniques; Spectrometry, Mass, Electrospray Ionization; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization
TL;DR: Challenges and limitations of MSI using IR-MALDESI are addressed in the context of the bioimaging field and valuable information is provided for targeted, label-free drug distribution studies and untargeted metabolomic datasets. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 chapter

MALDESI: Fundamentals, Direct Analysis, and MS Imaging

In Advances in MALDI and Laser-Induced Soft Ionization Mass Spectrometry (pp. 169–182).

By: M. Nazari n & D. Muddiman n

TL;DR: The vast experimental space governing the MAL Desorption electrospray ionization process has been investigated thoroughly, while its applications in direct analysis of biomolecules were explored. (via Semantic Scholar)
Sources: Crossref, ORCID
Added: January 18, 2021

2016 review

Optimizing Mass Spectrometry Analyses: A Tailored Review on the Utility of Design of Experiments

[Review of ]. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, 27(5), 767–785.

By: E. Hecht n, A. Oberg* & D. Muddiman n

author keywords: Design of experiments; Mass spectrometry; Tutorial; Optimization; Modeling
MeSH headings : Mass Spectrometry; Models, Statistical; Research Design
TL;DR: This review provides a tutorial-like guide into the selection of DOE for MS experiments, the practices for modeling and optimization of response variables, and the available software tools that support DOE implementation in any laboratory. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 journal article

Polarity switching mass spectrometry imaging of healthy and cancerous hen ovarian tissue sections by infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI)

ANALYST, 141(2), 595–605.

By: M. Nazari n & D. Muddiman n

MeSH headings : Animals; Chickens; Female; Infrared Rays; Molecular Imaging / methods; Ovarian Neoplasms / diagnostic imaging; Ovarian Neoplasms / pathology; Ovary / cytology; Ovary / diagnostic imaging; Ovary / pathology; Solvents / chemistry; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: In order to obtain a comprehensive metabolite and lipid data, a polarity switching MSI method using infrared matrix assisted laser desorption electrospray ionization (IR-MALDESI) was developed and optimized where the electrosPRay polarity was alternated from one voxel to the next. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 journal article

TransOmic analysis of forebrain sections in Sp2 conditional knockout embryonic mice using IR-MALDESI imaging of lipids and LC-MS/MS label-free proteomics

Analytical and Bioanalytical Chemistry, 408(13), 3453–3474.

By: P. Loziuk n, F. Meier n, C. Johnson n, H. Ghashghaei n & D. Muddiman n

author keywords: IR-MALDESI; Proteomics; Lipidomics; Mass spectrometry imaging; Embryonic brain
MeSH headings : Animals; Chromatography, Liquid / methods; Lipids / analysis; Mass Spectrometry / methods; Mice; Mice, Knockout; Prosencephalon / embryology; Prosencephalon / metabolism; Sp2 Transcription Factor / genetics; Spectrophotometry, Infrared / methods; Transcriptome
TL;DR: An integrated approach for systematic analysis of the “lipidome” in tissue revealed many specific changes to fundamental cellular processes and biosynthetic pathways in the cerebral cortices of Sp2-cKO embryos. (via Semantic Scholar)
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018

2016 journal article

Wall modified photonic crystal fibre capillaries as porous layer open tubular columns for in-capillary micro-extraction and capillary chromatography

ANALYTICA CHIMICA ACTA, 905, 1–7.

By: A. Kazarian n, E. Rodriguez*, J. Deverell*, J. McCord n, D. Muddiman n & B. Paull*

author keywords: Polymer monolith; Porous layer open tubular column; Fused silica photonic crystal fibres; In-capillary extraction; Bioseparations
MeSH headings : Chromatography, Liquid / instrumentation; Chromatography, Liquid / methods; Equipment Design; Photons; Porosity; Reproducibility of Results; Spectrometry, Fluorescence
TL;DR: The modified multi-channel capillaries were applied to the in-capillary micro-extraction of water samples, proving chromatographic potential of the new column format, with run-to-run retention time reproducibility of below 1%. (via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation (OpenAlex)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 article

What if you could only publish 50 papers your entire career?

Muddiman, D. C. (2016, January). ANALYTICAL AND BIOANALYTICAL CHEMISTRY, Vol. 408, pp. 663–664.

By: D. Muddiman n

TL;DR: Though this shift to the highest publishable unit (HPU) will not mean every paper is a blockbuster, it would guarantee that each manuscript fulfills one or more of three goals: Regardless of journal type or impact factor, each manuscript should detail a complete and significant study. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2016 journal article

Whole-body Mass Spectrometry Imaging by Infrared Matrix-assisted Laser Desorption Electrospray Ionization (IR-MALDESI)

Journal of Visualized Experiments, 3(109).

By: M. Nazari n, M. Bokhart n & D. Muddiman n

author keywords: Bioengineering; Issue 109; Mass spectrometry imaging; IR-MALDESI; Tissue analysis; Whole-body imaging; Metabolites; Lipids
MeSH headings : Histocytological Preparation Techniques / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: A robust IR-MALDESI imaging source has been developed, where a tunable mid-IR laser is synchronized with a computer controlled XY translational stage and a high resolving power mass spectrometer. (via Semantic Scholar)
Sources: Crossref, ORCID, NC State University Libraries
Added: August 6, 2018

2015 journal article

4-Coumaroyl and Caffeoyl Shikimic Acids Inhibit 4-Coumaric Acid: Coenzyme A Ligases and Modulate Metabolic Flux for 3-Hydroxylation in Monolignol Biosynthesis of Populus trichocarpa

MOLECULAR PLANT, 8(1), 176–187.

By: C. Lin n, J. Wang n, Q. Li*, H. Chen n, J. Liu n, P. Loziuk n, J. Song n, C. Williams n ...

Contributors: C. Lin n, J. Wang n, Q. Li*, H. Chen n, J. Liu n, P. Loziuk n, J. Song n, C. Williams n ...

author keywords: monolignol biosynthesis; Populus trichocarpa; metabolic flux; reaction and inhibition kinetics; LC-MS/MS; 4-coumaroyl and caffeoyl shikimic acids
MeSH headings : Acyl Coenzyme A / metabolism; Coenzyme A Ligases / metabolism; Coumaric Acids / metabolism; Coumaric Acids / pharmacology; Hydroxylation / drug effects; Plant Proteins / metabolism; Populus / drug effects; Populus / enzymology; Populus / metabolism; Propionates; Shikimic Acid / pharmacology
TL;DR: 4-coumaroyl and caffeoyl shikimic acids are inhibitors of Ptr4CL3 and Ptr 4CL5, which can reduce lignin content in a number of plant species and play significant regulatory roles when these inhibitors accumulate. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2015 journal article

Activin/Nodal Signaling Switches the Terminal Fate of Human Embryonic Stem Cell-derived Trophoblasts

JOURNAL OF BIOLOGICAL CHEMISTRY, 290(14), 8834–8848.

By: P. Sarkar n, S. Randall n, T. Collier n, A. Nero n, T. Russell n, D. Muddiman n, B. Rao n

MeSH headings : Activins / metabolism; Base Sequence; Cell Differentiation; Cell Lineage; DNA Methylation; DNA Primers; Embryonic Stem Cells / cytology; Embryonic Stem Cells / metabolism; Ephrin-B2 / genetics; Humans; Nodal Protein / metabolism; Polymerase Chain Reaction; Promoter Regions, Genetic; Signal Transduction; Trophoblasts / cytology; Trophoblasts / metabolism
TL;DR: It is shown that activin/nodal signaling switches the terminal fate of these hESC-derived trophoblasts, providing a model system that allows for targeted derivation of extravillous trophoblast and syncytiotrophoblasts. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2015 journal article

Analysis of trace fibers by IR-MALDESI imaging coupled with high resolving power MS

ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 407(3), 813–820.

By: K. Cochran n, J. Barry n, G. Robichaud n & D. Muddiman n

author keywords: Mass spectrometry imaging; Forensic science; Trace evidence; Polarity switching imaging; MALDESI
TL;DR: IR-MALDESI was used as a source for mass spectrometry imaging (MSI) of a dyed nylon fiber cluster and single fiber to yield more quantitative structural information about the dye and polymer that can be used for more conclusive comparisons. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2015 journal article

Assessing drug and metabolite detection in liver tissue by UV-MALDI and IR-MALDESI mass spectrometry imaging coupled to FT-ICR MS

INTERNATIONAL JOURNAL OF MASS SPECTROMETRY, 377, 448–455.

By: J. Barry n, M. Groseclose*, G. Robichaud n, S. Castellino* & D. Muddiman n

author keywords: MALDI; IR-MALDESI; Mass spectrometry imaging; Drug distribution
TL;DR: The detection of lapatinib as well as several of its metabolites in liver tissue was determined by MSI using infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI) coupled to high resolving power Fourier transform ion cyclotron resonance (FT-ICR) mass spectrometers. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2015 journal article

Cellular-level mass spectrometry imaging using infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI) by oversampling

ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 407(8), 2265–2271.

By: M. Nazari n & D. Muddiman n

author keywords: Mass spectrometry imaging; Infrared; MALDESI; Cellular analysis; Oversampling; Tissue analysis; Lipids
MeSH headings : Cells / chemistry; Cells / metabolism; Cervix Uteri / chemistry; Cervix Uteri / metabolism; Cholesterol / metabolism; Female; Humans; Microtomy; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / instrumentation; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: Infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI) imaging of cervical tissue sections was performed using a spot-to-spot distance of 10 μm by utilizing the method of oversampling, where the target plate is moved by a distance that is less than the desOrption radius of the laser. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2015 journal article

Definitive Screening Design Optimization of Mass Spectrometry Parameters for Sensitive Comparison of Filter and Solid Phase Extraction Purified, INLIGHT Plasma N-Glycans

ANALYTICAL CHEMISTRY, 87(14), 7305–7312.

By: E. Hecht n, J. McCord n & D. Muddiman n

MeSH headings : Animals; Chickens; Equipment Design; Mass Spectrometry / instrumentation; Polysaccharides / blood; Polysaccharides / isolation & purification; Solid Phase Extraction / instrumentation
TL;DR: High-throughput, quantitative processing of N-linked glycans would facilitate large-scale studies correlating the glycome with disease and open the field to basic and applied researchers by coupling filter-aided-N-glycan separation to the individuality normalization when labeling with glycan hydrazide tags (INLIGHT) for analysis of plasma. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2015 journal article

Elucidation of Xylem-Specific Transcription Factors and Absolute Quantification of Enzymes Regulating Cellulose Biosynthesis in Populus trichocarpa

JOURNAL OF PROTEOME RESEARCH, 14(10), 4158–4168.

By: P. Loziuk n, J. Parker n, W. Li n, C. Lin n, J. Wang n, Q. Li*, R. Sederoff n, V. Chiang n, D. Muddiman n

Contributors: P. Loziuk n, J. Parker n, W. Li n, C. Lin n, J. Wang n, Q. Li*, R. Sederoff n, V. Chiang n, D. Muddiman n

author keywords: shotgun discovery proteomics; absolute quantification; PC-IDMS; cellulose biosynthesis; transcription factor; targeted mass spectrometiry; SRM
MeSH headings : Carbohydrate Metabolism; Cellulose / biosynthesis; Cellulose / genetics; Chromatography, Liquid; Gene Expression Regulation, Plant; Molecular Sequence Annotation; Plant Proteins / genetics; Plant Proteins / isolation & purification; Plant Proteins / metabolism; Populus / genetics; Populus / metabolism; Proteome / genetics; Proteome / isolation & purification; Proteome / metabolism; Proteomics; Tandem Mass Spectrometry; Transcription Factors / genetics; Transcription Factors / isolation & purification; Transcription Factors / metabolism; Wood / chemistry; Wood / metabolism; Xylem / genetics; Xylem / metabolism
TL;DR: The study described herein sought to identify the proteins directly involved in cellulose biosynthesis during wood formation in Populus trichocarpa along with known xylem-specific transcription factors involved in regulating these key proteins. (via Semantic Scholar)
UN Sustainable Development Goal Categories
9. Industry, Innovation and Infrastructure (OpenAlex)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2015 journal article

Global Proteomic Analysis of Functional Compartments in Immature Avian Follicles Using Laser Microdissection Coupled to LC-MS/MS

JOURNAL OF PROTEOME RESEARCH, 14(9), 3912–3923.

By: A. Nepomuceno n, D. Muddiman n & J. Petitte n

author keywords: microdissection; proteomics; ovary; follicle; avian; chicken; yolk; steroidogenesis; vitellogenin
MeSH headings : Animals; Avian Proteins / analysis; Avian Proteins / chemistry; Chickens; Chromatography, Liquid; Female; Laser Capture Microdissection / methods; Ovarian Follicle / chemistry; Proteome / analysis; Proteome / chemistry; Proteomics / methods; Tandem Mass Spectrometry
TL;DR: A global proteome for SWF, white yolk, and ovarian stroma of the avian ovary is provided that can be used as a baseline for future studies and verifies that the coupling of LMD with proteomic analysis can be use to evaluate proteins from small, physiologically functional compartments of complex tissue. (via Semantic Scholar)
UN Sustainable Development Goal Categories
14. Life Below Water (OpenAlex)
15. Life on Land (Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2015 journal article

In-depth LC-MS/MS analysis of the chicken ovarian cancer proteome reveals conserved and novel differentially regulated proteins in humans

ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 407(22), 6851–6863.

By: A. Nepomuceno n, H. Shao*, K. Jing, Y. Ma*, J. Petitte n, M. Idowu*, D. Muddiman n, X. Fang*, A. Hawkridge*

author keywords: Mass spectrometry; Proteomics; Ovarian Cancer; Chicken; Ovostatin 2; OVOS2
MeSH headings : Amino Acid Sequence; Animals; Chickens; Chromatography, Liquid / methods; Conserved Sequence; Female; Gene Expression Regulation, Neoplastic; Humans; Mass Spectrometry / methods; Molecular Sequence Data; Neoplasm Proteins / metabolism; Ovarian Neoplasms / metabolism; Proteome / chemistry; Proteome / metabolism; Species Specificity
TL;DR: Analysis of the ovarian cancer proteome of the chicken provides the first evidence for involvement of OVOS2 in the pathogenesis of both chicken and human ovarian cancer. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (Web of Science; OpenAlex)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2015 journal article

Influence of C-Trap Ion Accumulation Time on the Detectability of Analytes in IR-MALDESI MSI

ANALYTICAL CHEMISTRY, 87(20), 10483–10490.

By: E. Rosen n, M. Bokhart n, M. Nazari n & D. Muddiman n

MeSH headings : Ions / chemistry; Lasers; Spectrometry, Mass, Electrospray Ionization; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization; Spectrophotometry, Infrared; Time Factors; Xenobiotics / analysis
TL;DR: Reducing the C-trap ion accumulation time resulted in increased ion abundance by up to 3 orders of magnitude for analytes ranging from xenobiotics to endogenous lipids, and facilitated the reduction of voxel-to-voxel variability by more than 3-fold. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2015 journal article

Influence of Desorption Conditions on Analyte Sensitivity and Internal Energy in Discrete Tissue or Whole Body Imaging by IR-MALDESI

Journal of The American Society for Mass Spectrometry, 26(6), 899–910.

By: E. Rosen n, M. Bokhart n, H. Ghashghaei n & D. Muddiman n

author keywords: IR-MALDESI; Mass spectrometry imaging; Laser desorption whole body imaging; Lipids; Xenobiotics
MeSH headings : Anesthetics, Local / analysis; Anesthetics, Local / pharmacokinetics; Animals; Cocaine / analysis; Cocaine / pharmacokinetics; Infrared Rays; Lipid Metabolism; Lipids / analysis; Mice; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods; Whole Body Imaging / methods
TL;DR: Optimized desorption conditions have been used to conduct an untargeted lipidomic analysis of whole body sagittal sections of neonate mouse, with enhanced lipid coverage received by varying the laser wavelength used for mass spectrometry imaging (MSI). (via Semantic Scholar)
UN Sustainable Development Goal Categories
7. Affordable and Clean Energy (OpenAlex)
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018

2015 journal article

Machine learning reveals sex-specific 17β-estradiol-responsive expression patterns in white perch (Morone americana) plasma proteins

PROTEOMICS, 15(15), 2678–2690.

By: J. Schilling n, A. Nepomuceno n, A. Planchart n, J. Yoder n, R. Kelly n, D. Muddiman n, H. Daniels n, N. Hiramatsu*, B. Reading n

Contributors: J. Schilling n, A. Nepomuceno n, A. Planchart n, J. Yoder n, R. Kelly n, D. Muddiman n, H. Daniels n, N. Hiramatsu*, B. Reading n

author keywords: Animal proteomics; Endocrine disrupting compounds; Machine learning; Plasma; Semiquantitative proteomics; Support vector machines
MeSH headings : Animals; Bass / metabolism; Blood Proteins / metabolism; Blotting, Western; Chromatography, Liquid; Estradiol / pharmacology; Estrogens / pharmacology; Female; Fish Proteins / metabolism; Kininogens / metabolism; Male; Nanotechnology / methods; Proteome / drug effects; Proteome / metabolism; Proteomics / methods; Sex Factors; Support Vector Machine; Tandem Mass Spectrometry; Vitellogenins / metabolism
TL;DR: This is the first report that Eltd1 and Kng1 may be E2‐responsive proteins in fishes and therefore may be useful indicators of estrogen induction in fishes. (via Semantic Scholar)
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018

2015 journal article

Mass Spectrometry Imaging Reveals Heterogeneous Efavirenz Distribution within Putative HIV Reservoirs

ANTIMICROBIAL AGENTS AND CHEMOTHERAPY, 59(5), 2944–2948.

By: C. Thompson*, M. Bokhart n, C. Sykes*, L. Adamson*, Y. Fedoriw*, P. Luciw*, D. Muddiman n, A. Kashuba*, E. Rosen n

MeSH headings : Alkynes; Animals; Anti-Retroviral Agents / pharmacokinetics; Benzoxazines / pharmacokinetics; Cyclopropanes; Gray Matter / metabolism; Lymph Nodes / metabolism; Macaca; Mass Spectrometry / methods
TL;DR: Intratissue efavirenz distribution was heterogeneous, with the drug concentrating in the lamina propria of the colon, the primary follicles of lymph nodes, and the brain gray matter, the first imaging data of an antiretroviral drug in active viral reservoirs. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (Web of Science; OpenAlex)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2015 journal article

Mechanisms of Egg Yolk Formation and Implications on Early Life History of White Perch (Morone americana)

PLOS ONE, 10(11).

By: J. Schilling n, P. Loziuk n, D. Muddiman n, H. Daniels n & B. Reading n

MeSH headings : Animals; Bass / metabolism; Blotting, Western; Chromatography, Liquid; Egg Proteins / metabolism; Egg Yolk / metabolism; Female; Immunohistochemistry; Oocytes / cytology; Oocytes / metabolism; Ovary / cytology; Receptors, Cell Surface / metabolism; Sexual Maturation; Staining and Labeling; Tandem Mass Spectrometry; Vitellogenins / metabolism
TL;DR: The three white perch vitellogenins were quantified accurately and precisely in the liver, plasma, and ovary during pre-vitellogenic oocyte growth using protein cleavage-isotope dilution mass spectrometry (PC-IDMS). (via Semantic Scholar)
UN Sustainable Development Goal Categories
14. Life Below Water (Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2015 personal communication

Michael Gross: 25 Years of Dedication and Leadership of JASMS (1990-2015)

Muddiman, D. C. (2015, January).

By: D. Muddiman n

Sources: Web Of Science, ORCID
Added: August 6, 2018

2015 journal article

Phosphoproteome Analysis Links Protein Phosphorylation to Cellular Remodeling and Metabolic Adaptation during Magnaporthe oryzae Appressorium Development

Journal of Proteome Research, 14(6), 2408–2424.

By: W. Franck n, E. Gokce n, S. Randall n, Y. Oh n, A. Eyre n, D. Muddiman n, R. Dean n

author keywords: Magnaporthe oryzae; quantitative phosphoproteomics; appressorium formation; network analysis; transcription factors
MeSH headings : Adaptation, Physiological; Basic Helix-Loop-Helix Transcription Factors / metabolism; Chromatography, Liquid; Fungal Proteins / metabolism; Magnaporthe / metabolism; Magnaporthe / physiology; Oryza / microbiology; Phosphoproteins / metabolism; Phosphorylation; Proteomics; Signal Transduction; Tandem Mass Spectrometry
TL;DR: Network analysis incorporating regulation from transcriptomic, proteomic, and phosphoproteomic data revealed new insights into the regulation of the metabolism of conidial storage reserves and phospholipids, autophagy, actin dynamics, and cell wall metabolism during appressorium formation. (via Semantic Scholar)
Sources: Crossref, ORCID, Web Of Science
Added: August 6, 2018

2015 journal article

Phosphorylation is an on/off switch for 5-hydroxyconiferaldehyde O-methyltransferase activity in poplar monolignol biosynthesis

Proceedings of the National Academy of Sciences, 112(27), 8481–8486.

By: J. Wang n, L. Chuang n, P. Loziuk n, H. Chen n, Y. Lin n, R. Shi n, G. Qu*, D. Muddiman n, R. Sederoff n, V. Chiang n

Contributors: J. Wang n, L. Chuang n, P. Loziuk n, H. Chen n, Y. Lin n, R. Shi n, G. Qu*, D. Muddiman n, R. Sederoff n, V. Chiang n

author keywords: AldOMT; COMT; lignin; phosphoproteomics; phosphoregulation
MeSH headings : Acrolein / analogs & derivatives; Acrolein / metabolism; Amino Acid Sequence; Binding Sites / genetics; Biocatalysis; Catechols / metabolism; Chromatography, Liquid; Electrophoresis, Polyacrylamide Gel; Green Fluorescent Proteins / genetics; Green Fluorescent Proteins / metabolism; Isoenzymes / genetics; Isoenzymes / metabolism; Lignin / biosynthesis; Methyltransferases / genetics; Methyltransferases / metabolism; Microscopy, Confocal; Molecular Sequence Data; Mutation; Phosphoproteins / metabolism; Phosphorylation; Plant Proteins / genetics; Plant Proteins / metabolism; Populus / enzymology; Populus / genetics; Populus / metabolism; Proteomics / methods; Protoplasts / enzymology; Protoplasts / metabolism; Sequence Homology, Amino Acid; Tandem Mass Spectrometry
TL;DR: It is shown that reversible monophosphorylation at Ser123 or Ser125 acts as an on/off switch for the activity of 5-hydroxyconiferaldehyde O-methyltransferase 2 (PtrAldOMT2), an enzyme central to monolignol biosynthesis for lignification in stem-differentiating xylem of Populus trichocarpa. (via Semantic Scholar)
Sources: Crossref, ORCID, Web Of Science
Added: August 6, 2018

2015 journal article

Quantitative mass spectrometry imaging of emtricitabine in cervical tissue model using infrared matrix-assisted laser desorption electrospray ionization

ANALYTICAL AND BIOANALYTICAL CHEMISTRY, 407(8), 2073–2084.

By: M. Bokhart n, E. Rosen n, C. Thompson*, C. Sykes*, A. Kashuba* & D. Muddiman n

author keywords: Mass spectrometry imaging; IR-MALDESI; Absolute quantification; Drug distribution; HIV; Selected reaction monitoring
MeSH headings : Diagnostic Imaging / instrumentation; Diagnostic Imaging / methods; Female; Humans; Papillomavirus Vaccines / chemistry; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / instrumentation; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods; Uterine Cervical Neoplasms / chemistry; Uterine Cervical Neoplasms / diagnosis
TL;DR: A quantitative mass spectrometry imaging technique using infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI) is demonstrated for the antiretroviral (ARV) drug emtricitabine in incubated human cervical tissue, leading to a gain in sensitivity and removal of interferences for several ARV drugs. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2015 journal article

Relative Quantification and Higher-Order Modeling of the Plasma Glycan Cancer Burden Ratio in Ovarian Cancer Case-Control Samples

JOURNAL OF PROTEOME RESEARCH, 14(10), 4394–4401.

By: E. Hecht*, E. Scholl*, S. Walker*, A. Taylor, W. Cliby*, A. Motsinger-Reif*, D. Muddiman*

author keywords: N-linked glycosylation; INLIGHT; ovarian cancer; relative quantification; cancer biomarker; human plasma
MeSH headings : Biomarkers, Tumor / blood; Carbohydrate Sequence; Case-Control Studies; Chromatography, Liquid / methods; Female; Fucose / blood; Glycosylation; Humans; Hydrazines / chemistry; Molecular Sequence Data; Neoplasm Staging; Ovarian Neoplasms / blood; Ovarian Neoplasms / diagnosis; Ovarian Neoplasms / pathology; Polysaccharides / blood; Sialic Acids / blood; Staining and Labeling / methods; Tandem Mass Spectrometry / methods
TL;DR: For all N-glycans, the vectors of the effects from stages II-IV were sequentially reversed, suggesting potential biological changes in OVC morphology or in host response. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2014 journal article

Accurate Identification of Deamidated Peptides in Global Proteomics Using a Quadrupole Orbitrap Mass Spectrometer

JOURNAL OF PROTEOME RESEARCH, 13(2), 777–785.

By: A. Nepomuceno n, R. Gibson n, S. Randall n & D. Muddiman n

author keywords: deamidation; post-translational modification; quadrupole orbitrap mass spectrometry
MeSH headings : Amides / chemistry; Chromatography, Liquid; Peptides / chemistry; Proteomics; Tandem Mass Spectrometry / instrumentation
Sources: Web Of Science, ORCID
Added: August 6, 2018

2014 article

Are Presentations at ASMS Conferences Publications?

Muddiman, D. C., & Weintraub, S. T. (2014, March). JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY, Vol. 25, pp. 301–302.

By: D. Muddiman n & S. Weintraub*

MeSH headings : Congresses as Topic; Humans; Mass Spectrometry; Publications; Societies, Scientific / organization & administration
Sources: Web Of Science, ORCID
Added: August 6, 2018

2014 chapter

Atmospheric Pressure Mass Spectrometry Imaging

In R. A. Meyers (Ed.), Encyclopedia of Analytical Chemistry: Applications, Theory and Instrumentation (pp. 1–44).

By: J. Barry n, D. Muddiman n & G. Robichaud n

Ed(s): R. Meyers

Sources: NC State University Libraries, ORCID
Added: March 8, 2021

2014 journal article

C/EBPα regulates CRL4Cdt2-mediated degradation of p21 in response to UVB-induced DNA damage to control the G1/S checkpoint

Cell Cycle, 13(22), 3602–3610.

By: J. Hall n, M. Bereman n, A. Nepomuceno n, E. Thompson n, D. Muddiman n & R. Smart n

author keywords: C/EBP alpha; CRL4(Cdt2); G(1)/S DNA damage checkpoint; keratinocytes; p21
MeSH headings : Animals; CCAAT-Enhancer-Binding Protein-alpha / genetics; CCAAT-Enhancer-Binding Protein-alpha / metabolism; Cell Cycle Checkpoints / genetics; Cell Cycle Checkpoints / radiation effects; Cyclin-Dependent Kinase Inhibitor p21 / metabolism; DNA Damage / genetics; DNA Damage / radiation effects; G1 Phase Cell Cycle Checkpoints / genetics; Keratinocytes / metabolism; Keratinocytes / radiation effects; Mice; Nuclear Proteins / genetics; Nuclear Proteins / metabolism; Proteolysis; Ubiquitin-Protein Ligases / genetics; Ubiquitin-Protein Ligases / metabolism; Ultraviolet Rays; p21-Activated Kinases / genetics; p21-Activated Kinases / metabolism
TL;DR: Findings reveal C/EBPα regulates G1/S cell cycle arrest in response to DNA damage via the control of CRL4Cdt2 mediated degradation of p21. (via Semantic Scholar)
Sources: Crossref, ORCID, Web Of Science
Added: August 6, 2018

2014 journal article

Compartment Proteomics Analysis of White Perch (Morone americana) Ovary Using Support Vector Machines

JOURNAL OF PROTEOME RESEARCH, 13(3), 1515–1526.

By: J. Schilling n, A. Nepomuceno n, J. Schaff n, D. Muddiman n, H. Daniels n & B. Reading n

author keywords: compartment proteomics; support vector machines; modulated modularity clustering; ovary; oocytes; vitellogenin; transcriptome; mitochondria; alternatively spliced variants
MeSH headings : Animals; Bass / metabolism; Chemical Fractionation; Female; Fish Proteins / analysis; Membrane Proteins / analysis; Mitochondrial Proteins / analysis; Molecular Sequence Annotation; Ovary / chemistry; Ovary / metabolism; Proteomics / methods; Support Vector Machine; Tandem Mass Spectrometry
TL;DR: The white perch ovary cytosolic and membrane proteomes and transcriptome presented in this study can support future investigations into oogenesis and early embryogenesis ofwhite perch and other members of the genus Morone. (via Semantic Scholar)
UN Sustainable Development Goal Categories
14. Life Below Water (Web of Science)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2014 journal article

Complete Proteomic-Based Enzyme Reaction and Inhibition Kinetics Reveal How Monolignol Biosynthetic Enzyme Families Affect Metabolic Flux and Lignin in Populus trichocarpa

The Plant Cell, 26(3), 894–914.

By: J. Wang n, P. Naik n, H. Chen n, R. Shi n, C. Lin n, J. Liu n, C. Shuford n, Q. Li n ...

Contributors: J. Wang n, P. Naik n, H. Chen n, R. Shi n, C. Lin n, J. Liu n, C. Shuford n, Q. Li n ...

MeSH headings : Kinetics; Lignin / metabolism; Mass Spectrometry; Plant Proteins / metabolism; Polymorphism, Single Nucleotide; Populus / metabolism; Proteome
TL;DR: A proteomic-based predictive kinetic metabolic-flux model was developed for monolignol biosynthesis in Populus trichocarpa and predicts how pathway enzymes affect lignin content and composition, explains a long-standing paradox regarding the regulation of monolIGNol subunit ratios in lignIn, and reveals novel mechanisms involved in theregulation of lign in biosynthesis. (via Semantic Scholar)
Sources: Web Of Science, ORCID, Crossref
Added: August 6, 2018

2014 journal article

Establishing ion ratio thresholds based on absolute peak area for absolute protein quantification using protein cleavage isotope dilution mass spectrometry

ANALYST, 139(21), 5439–5450.

By: P. Loziuk n, R. Sederoff n, V. Chiang n & D. Muddiman n

MeSH headings : Chromatography, Liquid; Isotopes / chemistry; Proteins / analysis; Tandem Mass Spectrometry / methods
TL;DR: It is suggested that evaluation of the absolute ion abundance for any given transition is necessary in order to effectively implement RA thresholds, and these RA values should be assessed as close as possible to the time at which data is collected for quantification. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018