Works Published in 2023
Displaying works 1 - 20 of 23 in total
Sorted by most recent date added to the index first, which may not be the same as publication date order.
2023 journal article
FrameD: framework for DNA-based data storage design, verification, and validation
BIOINFORMATICS, 39(10).
TL;DR:
FrameD fills a void in the tools publicly available to the DNA storage community by providing a modular and extensible framework with support for massive parallelism that will help accelerate the design process of future DNA-based storage systems.
(via Semantic Scholar)
academic.oup.com (publisher PDF)
UN Sustainable Development Goal Categories
9. Industry, Innovation and Infrastructure
(OpenAlex)
Source: Web Of Science
Added: April 8, 2024
2023 article
Programming Probiotics: Diet-responsive gene expression and colonization control in engineeredS. boulardii
Durmusoglu, D., Haller, D. J., Al’Abri, I. S., Day, K., Sands, C., Clark, A., … Crook, N. C. (2023, November 17).
TL;DR:
Five ligand-responsive gene expression systems were developed and galactose metabolism was repaired in Sb, enabling inducible gene expression in this strain and opening new avenues for precise dosing of therapeutics by Sb via control over its in vivo gene expression levels and localization within the gastrointestinal tract.
(via Semantic Scholar)
Source: ORCID
Added: February 1, 2024
2023 article
Morphological hallmarks of dopaminergic neurodegeneration are associated with altered neuron function inCaenorhabditis elegans
Clark, A. S., Huayta, J., Morton, K. S., Meyer, J. N., & San-Miguel, A. (2023, August 23).
TL;DR:
It is shown that nematodes with dopaminergic dendrite degeneration markers, such as blebbing or breakage, paralyze at higher rates in a dopamine solution, providing evidence that dopamin allergic neurodegeneration morphologies are correlated with functional neuronal outputs.
(via Semantic Scholar)
Source: ORCID
Added: February 1, 2024
2023 dataset
Data for: Endogenous DAF-16 spatiotemporal activity quantitatively predicts lifespan extension induced by dietary restriction
Dryad.
Contributors: J. Huayta, J. Crapster & A. Miguel
Source: ORCID
Added: February 1, 2024
2023 dataset
An unbiased, automated platform for scoring dopaminergic neurodegeneration in C. elegans
Dryad.
Contributors: A. Miguel, A. Clark, Z. Kalmanson, K. Morton, J. Hartman & J. Meyer
Source: ORCID
Added: February 1, 2024
2023 journal article
An unbiased, automated platform for scoring dopaminergic neurodegeneration in C. elegans
PLOS ONE.
Ed(s): P. Lajoie
TL;DR:
An automated, unbiased image processing algorithm is developed that can provide comparative insight into how each exposure affects dopaminergic neurodegeneration patterns and validate the accuracy of the algorithm by comparing code-generated, categorical degeneration results with manually scored dendrites of the same experiments.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: ORCID
Added: February 1, 2024
2023 article
Quantitative Modeling of the Short-Term Response to Nitrogen Availability that Coordinates Early Events in Lateral Root Initiation
Gaudinier, A., Broeck, L. V., Moreno-Risueño, M., Rodriguez-Medina, J., Sozzani, R., & Brady, S. M. (2023, December 6).
TL;DR:
Linking the N time course transcriptomics, LR mutant phenotypes, and cell-type specific single cell profiling, these approaches provide multiple lines of evidence to find and test the roles of TFs that are involved in early root patterning responses to N conditions.
(via Semantic Scholar)
Source: ORCID
Added: January 25, 2024
2023 conference paper
Prediction and functional characterization of transcriptional activation domains
Mahatma, S., Broeck, L. V., Morffy, N., Staller, M. V., Strader, L. C., & Sozzani, R. (2023, March 22).
TL;DR:
This work used an unsupervised learning approach to classify the ADs into 10 subclasses, which can be explored for AA specificity and AD functionality, and shed light on the non-linear properties of ADs.
(via Semantic Scholar)
Source: ORCID
Added: January 25, 2024
2023 article
Obituary Philip N. Benfey (1953-2023)
Bennett, M. J., Brady, S. M., Dinneny, J. R., Helariutta, Y., & Sozzani, R. (2023, November 20). DEVELOPMENTAL CELL, Vol. 58, pp. 2413–2415.
Sources: Web Of Science, NC State University Libraries
Added: January 2, 2024
2023 article
Back to the Future: Re-Engineering the Evolutionarily Lost Arbuscular Mycorrhiza Host Trait to Improve Climate Resilience for Agriculture
Hornstein, E. D., & Sederoff, H. (2023, September 13). CRITICAL REVIEWS IN PLANT SCIENCES, Vol. 9.
author keywords: Agriculture; climate change; genetic engineering; microbiome; mycorrhizae; molecular biology; symbiosis; sustainability
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
15. Life on Land
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: October 10, 2023
2023 article
Phosphate starvation: response mechanisms and solutions
Madison, I., Gillan, L., Peace, J., Gabrieli, F., Broeck, L., Jones, J. L., & Sozzani, R. (2023, August 23). (D. Ort, Ed.). JOURNAL OF EXPERIMENTAL BOTANY, Vol. 8.
Ed(s): D. Ort
author keywords: Nutrient uptake; nutrient sensing; phosphorus; Pi
TL;DR:
This review describes regulatory mechanisms used by specific tissues in the root apical meristem to sense and uptake phosphate from the rhizosphere and overviews the major mechanism of plant systemic phosphate starvation responses.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science; OpenAlex)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: September 18, 2023
2023 review
A molecular assessment of the practical potential of DNA-based computation
[Review of ]. CURRENT OPINION IN BIOTECHNOLOGY, 81.
TL;DR:
A reassessment of the potential of DNA computing systems, which has grown to encompass a diverse array of configurations and form the foundations of neural networks and diagnostic tools that aim to bring molecular computation to practical scales and applications.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: September 11, 2023
2023 journal article
Functional annotation of proteins for signaling network inference in non-model species
NATURE COMMUNICATIONS, 14(1).
TL;DR:
A multi-layer neural network that determines protein functionality directly from the protein sequence is developed that shows generalization and scalability and extends to Oryza sativa, Zea mays, Sorghum bicolor, and Triticum aestivum.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
15. Life on Land
(OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: September 5, 2023
2023 journal article
Profiling transcriptomic responses of human stem cell-derived medium spiny neuron-like cells to exogenous phasic and tonic neurotransmitters
MOLECULAR AND CELLULAR NEUROSCIENCE, 126.
author keywords: Human pluripotent stem cells; Medium spiny neuron; Tonic neuromodulation; Neurotransmitter; Gene desensitization; Transcriptome
TL;DR:
The results here suggest future optimizations of human stem cell derived neurons to increase their in vivo relevance and the biological insights that can be garnered from these models.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science; OpenAlex)
Source: Web Of Science
Added: August 28, 2023
2023 journal article
Laminin switches terminal differentiation fate of human trophoblast stem cells under chemically defined culture conditions
JOURNAL OF BIOLOGICAL CHEMISTRY, 299(5).
MeSH headings : Humans; Cell Differentiation / drug effects; Colforsin / pharmacology; Colforsin / metabolism; HLA-G Antigens / genetics; HLA-G Antigens / metabolism; Laminin / pharmacology; Stem Cells / cytology; Stem Cells / drug effects; Transforming Growth Factor beta / metabolism; Trophoblasts / cytology; Trophoblasts / metabolism; Culture Media / chemistry; Hypoxia-Inducible Factor 1, alpha Subunit / genetics; Gene Expression Regulation, Developmental / drug effects; Cytological Techniques / methods
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
5. Gender Equality
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: July 3, 2023
2023 article
An unbiased, automated platform for scoring dopaminergic neurodegeneration inC. elegans
Clark, A. S., Kalmanson, Z., Morton, K., Hartman, J., Meyer, J., & San-Miguel, A. (2023, February 3).
Source: ORCID
Added: May 31, 2023
2023 article
Exceptionally high genetic variance of the doubled haploid (DH) population of poplar
Liu, C., Wang, S., Liu, Y., Wang, M., Fan, E., Liu, C., … Qu, G. (2023, May 4). JOURNAL OF FORESTRY RESEARCH, Vol. 5.
author keywords: Populus; Anther culture; Doubled haploid; Genetic variance; Flow cytometry
TL;DR:
This study provides an effective protocol for poplar haploid induction based on an anther culture method and shows that some excellent homozygous lines have the potential to be model plants in genetic and breeding studies.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: May 30, 2023
2023 article
The ALOG family members OsG1L1 and OsG1L2 regulate inflorescence branching in rice
Beretta, V. M., Franchini, E., Din, I. U., Lacchini, E., Broeck, L., Sozzani, R., … Kater, M. M. (2023, April 21). PLANT JOURNAL, Vol. 4.
author keywords: Oryza sativa; transcription factor; inflorescence architecture; meristem identity; transcriptome analysis; CRISPR mutants; gene regulatory network; ALOG
TL;DR:
The spatio-temporal expression profiling and phenotypical analysis of CRISPR loss-of-function mutants of OsHOX14 suggests that the proposed GRN indeed serves as a valuable resource for the identification of new players involved in rice inflorescence development.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
13. Climate Action
(Web of Science)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: May 9, 2023
2023 journal article
Emergent molecular traits of lettuce and tomato grown under wavelength-selective solar cells
FRONTIERS IN PLANT SCIENCE, 14.
author keywords: agrivoltaic; greenhouse; solar power; sustainability; gene networks; photosynthesis; photomorphogenesis
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
13. Climate Action
(Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: April 11, 2023
2023 journal article
Chaetocin disrupts the SUV39H1-HP1 interaction independent of SUV39H1 methyltransferase activity
BIOCHEMICAL JOURNAL, 480(6), 421–432.
MeSH headings : Humans; Methyltransferases / metabolism; Repressor Proteins / metabolism; Histones / genetics; Histones / metabolism; Chromosomal Proteins, Non-Histone / metabolism
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: April 11, 2023
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