Works Published in 2005
Displaying works 21 - 40 of 59 in total
Sorted by most recent date added to the index first, which may not be the same as publication date order.
2005 journal article
Effects of flow and diffusion on chemotaxis studies in a microfabricated gradient generator
Lab on a Chip, 5(6), 611.
MeSH headings : Cell Line, Tumor; Cell Movement / physiology; Chemokines, CXC / physiology; Chemotaxis / physiology; Diffusion; HL-60 Cells; Humans; Microfluidics / instrumentation; Microfluidics / methods; Receptors, Chemokine / physiology; Sensitivity and Specificity; Time Factors
TL;DR:
When the microchannel flow rates were increased, cell trajectories along the x axis were found to be significantly affected and it may be possible to estimate the total tractile force exerted by a cell during chemotaxis, which would be particularly valuable for cells whose tractile forces are below the level of detection with standard techniques of traction-force microscopy.
(via Semantic Scholar)
europepmc.org (repository)
Source: Crossref
Added: September 18, 2021
2005 journal article
Characterization of passive microfluidic mixers fabricated using soft lithography
Microfluidics and Nanofluidics, 2(2), 180–183.
author keywords: microfluidics; micromixer
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(OpenAlex)
Source: Crossref
Added: January 21, 2021
2005 journal article
Screening of DNA aptamers against multiple proteins in tissue.
Nucleic Acids Symposium Series (2004), (49), 357–358. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=MEDLINE&KeyUT=MEDLINE:17150781&KeyUID=MEDLINE:17150781
Contributors: T. Noma, K. Ikebukuro, K. Sode , T. Ohkubo, Y. Sakasegawa, N. Hachiya, K. Kaneko
Source: ORCID
Added: October 9, 2020
2005 journal article
The molecular reaction vessels for a transesterification process created by molecular imprinting technique
Journal of Molecular Recognition, 18(3), 262–266.
author keywords: molecular imprinting; molecular reaction vessel; molecular recognition; polymeric catalyst; transesterification
MeSH headings : Catalysis; Esterification; Hexanols / chemistry; Imidazoles; Methacrylates / chemistry; Microspheres; Nitrophenols / chemistry; Polymers / chemical synthesis; Polymers / chemistry; Succinates / chemistry
TL;DR:
A polymeric catalyst was synthesized by co‐polymerizing 4(5)‐vinylimidazole and itaconic acid with trimethylpropanol trimethacrylate micro spheres with p‐nitrophenyl acetate as template, and molecular imprinting process enhanced the νmax of the Polymeric catalyst 3‐fold.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(OpenAlex)
Source: ORCID
Added: October 9, 2020
2005 journal article
SocA is a novel periplasmic binding protein for fructosyl amino acid
Biochemical and Biophysical Research Communications, 336(4), 1074–1080.
Contributors: A. Sakaguchi*, S. Ferri* & K. Sode*
author keywords: glycation; diabetes; fructosyl amino acid; sensor; bacterial periplasmic binding protein; SocA; Agrobacterium tumefaciens; conformational change; autofluorescence
MeSH headings : Agrobacterium tumefaciens / metabolism; Amino Acid Sequence; Amino Acids / metabolism; Bacterial Proteins / chemistry; Bacterial Proteins / isolation & purification; Bacterial Proteins / metabolism; Cloning, Molecular; Escherichia coli / genetics; Escherichia coli / metabolism; Fluorescence; Fructose / metabolism; Molecular Sequence Data; Periplasmic Binding Proteins / chemistry; Periplasmic Binding Proteins / isolation & purification; Periplasmic Binding Proteins / metabolism; Protein Binding; Recombinant Proteins / chemistry; Recombinant Proteins / isolation & purification; Recombinant Proteins / metabolism; Substrate Specificity
TL;DR:
It is demonstrated that SocA is a novel FA bPBP that can be utilized as a novel molecular recognition element for the monitoring of FA.
(via Semantic Scholar)
Source: ORCID
Added: October 9, 2020
2005 journal article
Novel electrochemical sensor system for protein using the aptamers in sandwich manner
Biosensors & Bioelectronics, 20(10), 2168–2172.
Contributors: K. Ikebukuro *, C. Kiyohara* & K. Sode*
author keywords: aptamer; sandwich manner; electrochemical detection; pyrroquinoline quinone glucose dehydrogenase ((PQQ)GDH)
MeSH headings : Biosensing Techniques / instrumentation; Biosensing Techniques / methods; Electrochemistry / instrumentation; Electrochemistry / methods; Equipment Design; Equipment Failure Analysis; Humans; Immunoassay / instrumentation; Immunoassay / methods; Protein Binding; Protein Interaction Mapping / instrumentation; Protein Interaction Mapping / methods; Thrombin / analysis; Thrombin / chemistry
TL;DR:
The batch type protein sensing system was constructed using the two different aptamers sandwichingThrombin and it showed linear response to the increase of the thrombin concentration in the range of 40-100 nM.
(via Semantic Scholar)
Source: ORCID
Added: October 9, 2020
2005 journal article
Isolation and characterization of a fructosyl-amine oxidase from an Arthrobacter sp.
Biotechnology Letters, 27(1), 27–32.
Contributors: S. Ferri*, A. Sakaguchi*, H. Goto*, W. Tsugawa * & K. Sode*
author keywords: Arthrobacter; biosensor; diabetes; fructosyl-amine oxidase; hemoglobin A1c
MeSH headings : Amino Acid Oxidoreductases / chemistry; Amino Acid Oxidoreductases / genetics; Amino Acid Oxidoreductases / isolation & purification; Amino Acid Oxidoreductases / metabolism; Amino Acid Sequence; Animals; Arthrobacter / enzymology; Base Sequence; Biosensing Techniques; Escherichia coli / genetics; Molecular Sequence Data; Recombinant Proteins / chemistry; Recombinant Proteins / genetics; Recombinant Proteins / isolation & purification; Recombinant Proteins / metabolism; Sequence Homology, Amino Acid
Source: ORCID
Added: October 9, 2020
2005 journal article
Increasing stability of water-soluble PQQ glucose dehydrogenase by increasing hydrophobic interaction at dimeric interface
BMC Biochemistry, 6.
Contributors: S. Tanaka*, S. Igarashi*, S. Ferri* & K. Sode*
MeSH headings : Actinobacteria / genetics; Actinobacteria / metabolism; Dimerization; Enzyme Stability / physiology; Glucose Dehydrogenases / genetics; Glucose Dehydrogenases / metabolism; Hydrophobic and Hydrophilic Interactions; Solubility; Surface Properties; Water
TL;DR:
Through rational design based on the quaternary structure of the enzyme, residues located at the dimer interface that do not contribute to the intersubunit interaction are selected and the thermal stability of PQQGDH-B was increased without decreasing its catalytic activity.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(OpenAlex)
Source: ORCID
Added: October 9, 2020
2005 journal article
High-rate thermophilic methane fermentation on short-chain fatty acids in a down-flow anaerobic packed-bed reactor
Bioprocess and Biosystems Engineering, 27(2), 105–113.
author keywords: thermophilic methane fermentation; short-chain fatty acids; short HRTs; high organic loading rate; supporting media
MeSH headings : Acetic Acid / metabolism; Bacteria, Anaerobic / growth & development; Bacteria, Anaerobic / metabolism; Bioreactors / microbiology; Butyric Acid / metabolism; Cell Culture Techniques / methods; Euryarchaeota / growth & development; Euryarchaeota / metabolism; Fatty Acids, Volatile / metabolism; Fermentation / physiology; Methane / metabolism
TL;DR:
In order to maximize the efficiency of methane fermentation on short-chain fatty acids, growth media containing acetic acid and butyric acid as major carbon sources were supplied to a thermophilic down-flow anaerobic packed-bed reactor.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(OpenAlex)
Source: ORCID
Added: October 9, 2020
2005 journal article
Engineered alpha-synuclein prevents wild type and familial Parkin variant fibril formation
Biochemical and Biophysical Research Communications, 335(2), 432–436.
Contributors: K. Sode* , E. Usuzaka*, N. Kobayashi * & S. Ochial
author keywords: alpha-synuclein; amyloid fibril; site-directed mutagenesis; natively unfolded protein; Parkinson's disease
MeSH headings : Alzheimer Disease / metabolism; Amino Acid Sequence; Amyloid / chemistry; Bone Marrow Cells / cytology; Circular Dichroism; DNA / chemistry; DNA, Complementary / metabolism; Gene Library; Humans; Light; Models, Molecular; Molecular Sequence Data; Mutagenesis, Site-Directed; Mutation; Nerve Tissue Proteins / chemistry; Nerve Tissue Proteins / genetics; Nerve Tissue Proteins / physiology; Parkinson Disease / metabolism; Peptides / chemistry; Polymerase Chain Reaction; Proline / chemistry; Protein Binding; Protein Conformation; Protein Engineering; Protein Structure, Secondary; Scattering, Radiation; Synucleins; Time Factors; Ubiquitin-Protein Ligases / chemistry; Ubiquitin-Protein Ligases / genetics; Ultraviolet Rays; Valine / chemistry; alpha-Synuclein
TL;DR:
Mixing the Val70Thr/Val71Thr double mutant, which has inherently low potential, with the fibril forming α-synucleins, WT and Ala53Thr, greatly reduced their fibrils formation and aggregation and has great potential for further therapeutic approaches.
(via Semantic Scholar)
Source: ORCID
Added: October 9, 2020
2005 journal article
Development of a novel sensing probe using DNA aptamer inhibiting enzymatic activity.
Nucleic Acids Symposium Series (2004), (49), 83–84. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=MEDLINE&KeyUT=MEDLINE:17150644&KeyUID=MEDLINE:17150644
Contributors: K. Ikebukuro, W. Yoshida & K. Sode
Source: ORCID
Added: October 9, 2020
2005 journal article
Development of a novel glucose enzyme fuel cell system employing protein engineered PQQ glucose dehydrogenase
Biosensors & Bioelectronics, 20(10), 2145–2150.
Contributors: N. Yuhashi*, M. Tomiyama*, J. Okuda*, S. Igarashi*, K. Ikebukuro * & K. Sode*
author keywords: enzyme fuel cell; PQQ glucose dehydrogenase; protein engineering; bilirubin oxidase; stability
MeSH headings : Acinetobacter calcoaceticus / enzymology; Acinetobacter calcoaceticus / genetics; Amino Acid Substitution; Electric Power Supplies; Electrochemistry / instrumentation; Electrochemistry / methods; Energy Transfer; Equipment Design; Equipment Failure Analysis; Feasibility Studies; Glucose / chemistry; Glucose 1-Dehydrogenase / chemistry; Glucose 1-Dehydrogenase / genetics; Mutagenesis, Site-Directed; Pilot Projects; Protein Engineering / methods
TL;DR:
This work constructed the biofuel cell system employing the engineered PQQGDH as the bioanode enzyme and bilirubin oxidase (BOD) as the biocathode, and compared the stability of the bio fuel cell with that employing wild-type PQZGDH.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
7. Affordable and Clean Energy
(OpenAlex)
Source: ORCID
Added: October 9, 2020
2005 journal article
Construction of artificial cyclic amide amidohydrolases using molecular imprinting technique
Biotechnology Letters, 27(7), 471–475.
Contributors: Z. Meng *, T. Yamazaki * & K. Sode
author keywords: artificial enzyme; creatininase; cyclic amide amidohydrolase; hydantoinase; molecular imprinting
MeSH headings : Amidohydrolases / chemical synthesis; Amidohydrolases / chemistry; Amidohydrolases / metabolism; Catalysis; Creatinine / metabolism; Hydantoins / metabolism; Molecular Mimicry; Molecular Structure; Polymethacrylic Acids / chemistry; Polymethacrylic Acids / metabolism; Vinyl Compounds / chemistry; Vinyl Compounds / metabolism
TL;DR:
A general molecular imprinting approach is proposed to synthesize artificial enzymes to mimic the family of cyclic amide amidohydrolases which share similar active site and catalytic mechanism.
(via Semantic Scholar)
Source: ORCID
Added: October 9, 2020
2005 journal article
Esophageal Reconstruction with ECM and Muscle Tissue in a Dog Model
Journal of Surgical Research, 128(1), 87–97.
author keywords: extracellular matrix; urinary bladder matrix; esophagus; surgery; tissue engineering; scaffold; esophageal cancer; regenerative medicine; bioscaffold
MeSH headings : Animals; Biomechanical Phenomena; Dogs; Esophageal Stenosis / etiology; Esophageal Stenosis / prevention & control; Esophagectomy / adverse effects; Esophagus / physiopathology; Esophagus / surgery; Extracellular Matrix / physiology; Female; Models, Animal; Muscle, Smooth / physiology; Muscle, Smooth / surgery; Plastic Surgery Procedures / methods; Recovery of Function; Tissue Engineering / methods
TL;DR:
It is concluded that ECM bioscaffolds plus autologous muscle tissue, but not ECM scaffolds or muscle tissue alone, can facilitate the in situ reconstitution of structurally and functionally acceptable esophageal tissue.
(via Semantic Scholar)
Source: Crossref
Added: August 28, 2020
2005 journal article
Analytically derived material properties of multilaminated extracellular matrix devices using the ball-burst test
Biomaterials, 26(27), 5518–5531.
author keywords: bladder; ECM; multilaminate devices; mechanical properties; mechanical test; ball-burst test; scaffold
MeSH headings : Animals; Biocompatible Materials / analysis; Biocompatible Materials / chemistry; Biomechanical Phenomena / methods; Compressive Strength; Computer Simulation; Elasticity; Extracellular Matrix / chemistry; Extracellular Matrix / physiology; Manufactured Materials / analysis; Materials Testing / methods; Models, Biological; Models, Chemical; Physical Stimulation / methods; Swine; Tensile Strength
TL;DR:
The ball-burst test was used to simulate biaxial forces and to determine the strength of the ECM scaffold under a relevant physiological loading condition and proposed approximations were used to compute biaXial failure properties for a variety of multilaminate ECM devices with varying number of layers.
(via Semantic Scholar)
Source: Crossref
Added: August 28, 2020
2005 journal article
A microfluidic mixer with grooves placed on the top and bottom of the channel
Lab on a Chip, 5(5), 524.
MeSH headings : Computer Simulation; Microfluidic Analytical Techniques / instrumentation; Microfluidic Analytical Techniques / methods; Microfluidics / instrumentation; Microfluidics / methods; Polymethyl Methacrylate / chemistry; Sensitivity and Specificity; Surface Properties
TL;DR:
A new microfluidic mixer is presented consisting of a rectangular channel with grooves placed in the top and bottom, which not only increases the driving force behind the lateral flow, but allows for the formation of advection patterns that cannot be created with structures on the bottom alone.
(via Semantic Scholar)
Source: Crossref
Added: August 28, 2020
2005 journal article
Antimicrobial Peptides for Detection of Bacteria in Biosensor Assays
Analytical Chemistry, 77(19), 6504–6508.
MeSH headings : Anti-Infective Agents / analysis; Anti-Infective Agents / metabolism; Antimicrobial Cationic Peptides / analysis; Antimicrobial Cationic Peptides / metabolism; Biosensing Techniques / methods; Escherichia coli / isolation & purification; Escherichia coli / metabolism; Salmonella typhimurium / isolation & purification; Salmonella typhimurium / metabolism
TL;DR:
The results showed that both specific and nonspecific binding strongly depend on the method used for peptide immobilization, and direct attachment of magainin to the substrate surface not only decreased nonspecial cell binding but also resulted in improved detection limits for both Salmonella and E. coli.
(via Semantic Scholar)
Source: Crossref
Added: August 28, 2020
2005 journal article
Array Biosensor for Detection of Ochratoxin A in Cereals and Beverages
Analytical Chemistry, 77(1), 148–154.
MeSH headings : Beverages / analysis; Beverages / microbiology; Biosensing Techniques / methods; Edible Grain / chemistry; Edible Grain / microbiology; Immunoassay; Ochratoxins / analysis; Sensitivity and Specificity
TL;DR:
The development of a rapid and highly sensitive array biosensor for the detection and quantitation of ochratoxin A (OTA) using a competitive immunoassay format and measuring the formation of the fluorescent immunocomplex on the waveguide surface.
(via Semantic Scholar)
Source: Crossref
Added: August 28, 2020
2005 journal article
A “do-it-yourself” array biosensor
Methods, 37(1), 65–72.
author keywords: biosensor; evanescent wave; array; planar waveguide; fluorescence
MeSH headings : Biosensing Techniques / methods; Fluorescence; Immunoassay
TL;DR:
This array biosensor, based on a planar waveguide, a modified microscope slide, with a pattern of small sensing regions, can detect many different targets, including proteins, toxins, cells, virus, and explosives with detection limits rivaling those of the ELISA detection system.
(via Semantic Scholar)
Source: Crossref
Added: August 28, 2020
2005 journal article
A portable automated multianalyte biosensor
Talanta, 65(5), 1078–1085.
author keywords: array biosensor; multianalyte; fluorescence; portable biosensor
TL;DR:
The miniaturization and automation of the array biosensor for portability and on-site use is described, and simultaneous assays were automatically conducted on samples containing both ovalbumin and staphylococcal enterotoxin B.
(via Semantic Scholar)
Source: Crossref
Added: August 28, 2020
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