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Author Details

Matthew L Settles
University of California Davis Genome Center
2008
87
28
Nevan J Krogan (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36599469Human soft tissue sarcomas harbor an intratumoral viral microbiome which is linked with natural killer cell infiltrate and prognosis.J Immunother Cancer2023
37425915NeuroMabSeq: high volume acquisition, processing, and curation of hybridoma sequences and their use in generating recombinant monoclonal antibodies and scFvs for neuroscience research.bioRxiv2023
36075764Comparative Transcriptional Analyses in the Nucleus Accumbens Identifies RGS2 as a Key Mediator of Depression-Related Behavior.Biol Psychiatry2022
35652318Effects of pairing on color change and central gene expression in lined seahorses.Genes Brain Behav2022
35730550Workshop-based learning and networking: a scalable model for research capacity strengthening in low- and middle-income countries.Glob Health Action2022
36474787A two-stage digestion of whole murine knee joints for single-cell RNA sequencing.Osteoarthr Cartil Open2022
36481746Biofilms preserve the transmissibility of a multi-drug resistance plasmid.NPJ Biofilms Microbiomes2022
33410870Diversification, Introgression, and Rampant Cytonuclear Discordance in Rocky Mountains Chipmunks (Sciuridae: Tamias).Syst Biol2021
34916612Sex disparate gut microbiome and metabolome perturbations precede disease progression in a mouse model of Rett syndrome.Commun Biol2021
34550367Dual transcriptomic analysis reveals metabolic changes associated with differential persistence of human pathogenic bacteria in leaves of Arabidopsis and lettuce.G3 (Bethesda)2021
34514432Inhibition of MET Signaling with Ficlatuzumab in Combination with Chemotherapy in Refractory AML: Clinical Outcomes and High-Dimensional Analysis.Blood Cancer Discov2021
34414383Protective heterologous T cell immunity in COVID-19 induced by the trivalent MMR and Tdap vaccine antigens.Med2021
34013419The auxin-producing Bacillus thuringiensis RZ2MS9 promotes the growth and modifies the root architecture of tomato (Solanum lycopersicum cv. Micro-Tom).Arch Microbiol2021
34098115Wilson Disease: Intersecting DNA Methylation and Histone Acetylation Regulation of Gene Expression in a Mouse Model of Hepatic Copper Accumulation.Cell Mol Gastroenterol Hepatol2021
33972940Protective heterologous T cell immunity in COVID-19 induced by MMR and Tdap vaccine antigens.bioRxiv2021
33221288Disruption of global hypothalamic microRNA (miR) profiles and associated behavioral changes in California mice (Peromyscus californicus) developmentally exposed to endocrine disrupting chemicals.Horm Behav2021
32382253Bioinformatics Core Survey Highlights the Challenges Facing Data Analysis Facilities.J Biomol Tech2020
34512988Transcriptomic response to elevated water temperatures in adult migrating Yukon River Chinook salmon (<i>Oncorhynchus tshawytscha</i>).Conserv Physiol2020
33193640Association of the Lactase Persistence Haplotype Block With Disease Risk in Populations of European Descent.Front Genet2020
33210453Chromatin accessibility in canine stromal cells and its implications for canine somatic cell reprogramming.Stem Cells Transl Med2020
32732234Complete Genome Sequence of <i>Bacillus</i> sp. Strain RZ2MS9, a Multitrait Plant Growth Promoter.Microbiol Resour Announc2020
32753092MYBPC3 Haplotype Linked to Hypertrophic Cardiomyopathy in Rhesus Macaques (Macaca mulatta).Comp Med2020
30702951Transcriptome Analysis of Salmonella Heidelberg after Exposure to Cetylpyridinium Chloride, Acidified Calcium Hypochlorite, and Peroxyacetic Acid.J Food Prot2019
31637255Additional Evidence for <i>DDB2</i> T338M as a Genetic Risk Factor for Ocular Squamous Cell Carcinoma in Horses.Int J Genomics2019
31888477Proximal femoral head transcriptome reveals novel candidate genes related to epiphysiolysis in broiler chickens.BMC Genomics2019
31826975Rectal Microbiome Composition Correlates with Humoral Immunity to HIV-1 in Vaccinated Rhesus Macaques.mSphere2019
31733517Single-Cell RNA-seq Reveals Profound Alterations in Mechanosensitive Dorsal Root Ganglion Neurons with Vitamin E Deficiency.iScience2019
30239913Whole transcriptome analysis of the pectoralis major muscle reveals molecular mechanisms involved with white striping in broiler chickens.Poult Sci2019
30801027Ultrahigh-Throughput Multiplexing and Sequencing of &gt;500-Base-Pair Amplicon Regions on the Illumina HiSeq 2500 Platform.mSystems2019
2930404716S rRNA analysis of diversity of manure microbial community in dairy farm environment.PLoS One2018
29882708Obesity treatment by epigallocatechin-3-gallate-regulated bile acid signaling and its enriched Akkermansia muciniphila.FASEB J2018
30568805Fatherhood alters gene expression within the MPOA.Environ Epigenet2018
29449403High-Quality Complete Genome Sequences of Three Bovine Shiga Toxin-Producing Escherichia coli O177:H- (fliCH25) Isolates Harboring Virulent stx2 and Multiple Plasmids.Genome Announc2018
27909757Erratum to: Small RNAs from a Big Genome: The piRNA Pathway and Transposable Elements in the Salamander Species Desmognathus fuscus.J Mol Evol2017
28337070Genomic Methods and Microbiological Technologies for Profiling Novel and Extreme Environments for the Extreme Microbiome Project (XMP).J Biomol Tech2017
28371384Unlocking the story in the swab: A new genotyping assay for the amphibian chytrid fungus Batrachochytrium dendrobatidis.Mol Ecol Resour2017
28724659Human Milk Microbial Community Structure Is Relatively Stable and Related to Variations in Macronutrient and Micronutrient Intakes in Healthy Lactating Women.J Nutr2017
26798085Mitochondrial Genome Sequence of the Galápagos Endemic Land Snail Naesiotus nux.Genome Announc2016
26668183Evolutionary Paths That Expand Plasmid Host-Range: Implications for Spread of Antibiotic Resistance.Mol Biol Evol2016
26363411The population genomics of rapid adaptation: disentangling signatures of selection and demography in white sands lizards.Mol Ecol2016
27743003Small RNAs from a Big Genome: The piRNA Pathway and Transposable Elements in the Salamander Species Desmognathus fuscus.J Mol Evol2016
27547540Love the one you're with: replicate viral adaptations converge on the same phenotypic change.PeerJ2016
26828929A Phylogenomic Approach Based on PCR Target Enrichment and High Throughput Sequencing: Resolving the Diversity within the South American Species of Bartsia L. (Orobanchaceae).PLoS One2016
26798113Full Mitochondrial Genome Sequence of the Sugar Beet Wireworm Limonius californicus (Coleoptera: Elateridae), a Common Agricultural Pest.Genome Announc2016
25545096Comparative analysis of microbial community of novel lactic acid fermentation inoculated with different undefined mixed cultures.Bioresour Technol2015
26311809Fecal Microbial Community Structure Is Stable over Time and Related to Variation in Macronutrient and Micronutrient Intakes in Lactating Women.J Nutr2015
25838493Draft Genome Sequence of Pseudomonas sp. nov. H2.Genome Announc2015
25661476Elevated dairy fat intake in lactating women alters milk lipid and fatty acids without detectible changes in expression of genes related to lipid uptake or synthesis.Nutr Res2015
25778779Fine-scale analysis of 16S rRNA sequences reveals a high level of taxonomic diversity among vaginal Atopobium spp.Pathog Dis2015
25805726Vaginal microbiota of adolescent girls prior to the onset of menarche resemble those of reproductive-age women.mBio2015
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Collaborators

James A Foster
University of Idaho
Co-authored papers 3
David R Walt
Brigham and Women's Hospital
Co-authored papers 2
Michael B Eisen
Howard Hughes Medical Institute, University of California Berkeley
Co-authored papers 1
Lynn M Schriml
University of Maryland School of Medicine, Institute for Genome Sciences
Co-authored papers 1
Jonathan A Eisen
McLean Hospital
Co-authored papers 1
Robert Nichols
University of California berkeley
Co-authored papers 1
Alexandra Tsitsiklis
University of California san francisco
Co-authored papers 1
William J Murphy
Co-authored papers 1
P Robert Beatty
School of Public Health, University of California berkeley
Co-authored papers 1
Sarah Stanley
University of California berkeley
Co-authored papers 1
Michael Rape
Howard Hughes Medical Institute, University of California at Berkeley
Co-authored papers 1
Nevan J Krogan (CM4AI)
University of California San Francisco
Co-authored papers 1
Lucy M Li
Co-authored papers 1
William Kelley Thomas
Co-authored papers 1
Ivan Mwebaza
Case Western Reserve University School of Medicine
Co-authored papers 1
Stephen L Isaacs
Robert Wood Johnson Foundation in Princeton
Co-authored papers 1
Katie A Lien
Pritzker School of Medicine, University of Chicago
Co-authored papers 1
Manu Vanaerschot
Columbia University Irving Medical Center
Co-authored papers 1
Jeffrey D Jensen
Co-authored papers 1
Eric Lee
School of Public Health, University of California berkeley
Co-authored papers 1
Ashok R Dinasarapu
Co-authored papers 1
Nadine Czudnochowski
University of California san francisco
Co-authored papers 1
Nikos C Kyrpides
Co-authored papers 1
Shannan J Ho Sui
Harvard T.H. Chan School of Public Health
Co-authored papers 1
Matt Knight
University of California berkeley
Co-authored papers 1
Isabelle Charles
Co-authored papers 1
Oren S Rosenberg
University of California san francisco
Co-authored papers 1
Arthur Reingold
University of California berkeley
Co-authored papers 1
Moriel Singer-Berk
Co-authored papers 1
James D Fortenberry
Indiana University School of Medicine
Co-authored papers 1
Release 1.2