Zobrazeno 1 - 10
of 281
pro vyhledávání: '"Matthew Stephens"'
Autor:
Peter Carbonetto, Kaixuan Luo, Abhishek Sarkar, Anthony Hung, Karl Tayeb, Sebastian Pott, Matthew Stephens
Publikováno v:
Genome Biology, Vol 24, Iss 1, Pp 1-37 (2023)
Abstract Parts-based representations, such as non-negative matrix factorization and topic modeling, have been used to identify structure from single-cell sequencing data sets, in particular structure that is not as well captured by clustering or othe
Externí odkaz:
https://doaj.org/article/4270b099569c4995a25bdf1893936866
Autor:
Selene M. Clay, Nathan Schoettler, Andrew M. Goldstein, Peter Carbonetto, Matthew Dapas, Matthew C. Altman, Mario G. Rosasco, James E. Gern, Daniel J. Jackson, Hae Kyung Im, Matthew Stephens, Dan L. Nicolae, Carole Ober
Publikováno v:
Genome Medicine, Vol 14, Iss 1, Pp 1-16 (2022)
Abstract Background Genome-wide association studies of asthma have revealed robust associations with variation across the human leukocyte antigen (HLA) complex with independent associations in the HLA class I and class II regions for both childhood-o
Externí odkaz:
https://doaj.org/article/5ad2bffb561c45329d8d724aa87835f6
Publikováno v:
PLoS Genetics, Vol 18, Iss 7, p e1010299 (2022)
In recent work, Wang et al introduced the "Sum of Single Effects" (SuSiE) model, and showed that it provides a simple and efficient approach to fine-mapping genetic variants from individual-level data. Here we present new methods for fitting the SuSi
Externí odkaz:
https://doaj.org/article/95dbe388f9bf465cbf4ab2da092f423f
Autor:
Dante Alexander Patrick Louie, Darellynn Oo, Glory Leung, Yujia Lin, Matthew Stephens, Omar Alrashed, Marcus Tso, Shan Liao
Publikováno v:
Frontiers in Pharmacology, Vol 13 (2022)
Lymph node metastasis is associated with tumor aggressiveness and poor prognosis in patients. Despite its significance in cancer progression, how immune cells in the tumor-draining lymph node (TDLN) participate in cancer immune regulation remains poo
Externí odkaz:
https://doaj.org/article/9b864a36b3a84dbf8e276eb7061becc0
Autor:
Alvaro N. Barbeira, Rodrigo Bonazzola, Eric R. Gamazon, Yanyu Liang, YoSon Park, Sarah Kim-Hellmuth, Gao Wang, Zhuoxun Jiang, Dan Zhou, Farhad Hormozdiari, Boxiang Liu, Abhiram Rao, Andrew R. Hamel, Milton D. Pividori, François Aguet, GTEx GWAS Working Group, Lisa Bastarache, Daniel M. Jordan, Marie Verbanck, Ron Do, GTEx Consortium, Matthew Stephens, Kristin Ardlie, Mark McCarthy, Stephen B. Montgomery, Ayellet V. Segrè, Christopher D. Brown, Tuuli Lappalainen, Xiaoquan Wen, Hae Kyung Im
Publikováno v:
Genome Biology, Vol 22, Iss 1, Pp 1-24 (2021)
Abstract The resources generated by the GTEx consortium offer unprecedented opportunities to advance our understanding of the biology of human diseases. Here, we present an in-depth examination of the phenotypic consequences of transcriptome regulati
Externí odkaz:
https://doaj.org/article/84ae6dd57bee4833929e3d4586a1d87a
Publikováno v:
Scientific Reports, Vol 11, Iss 1, Pp 1-11 (2021)
Abstract TLR4 location, and bacterial species-derived lipopolysaccharides, play a significant role in the downstream activation of transcription factors, accessory molecules, and products. Here, this is demonstrated through the use of classically-act
Externí odkaz:
https://doaj.org/article/a047d45fcc244d60a2d23de69eade9cd
Publikováno v:
Gut Microbes, Vol 11, Iss 3, Pp 421-432 (2020)
Patients presenting with Inflammatory bowel disease have been shown to exhibit an altered microbiome in both Crohn’s disease and Ulcerative colitis. This shift in the microbial content led us to question whether several of these microbes are import
Externí odkaz:
https://doaj.org/article/399f8cf902294c21b6d37ba60a12ab71
Autor:
Siming Zhao, Jun Liu, Pranav Nanga, Yuwen Liu, A. Ercument Cicek, Nicholas Knoblauch, Chuan He, Matthew Stephens, Xin He
Publikováno v:
Nature Communications, Vol 10, Iss 1, Pp 1-13 (2019)
Finding driver genes sheds lights on the biological mechanisms propelling the development of a tumour, and can suggest therapeutic strategies. Here, the authors develop driverMAPS, a model-based approach to identify driver genes, and apply it to TCGA
Externí odkaz:
https://doaj.org/article/e2cfc4a4bb3344c3b518ce9ae9dea3be
Publikováno v:
Nature Communications, Vol 10, Iss 1, Pp 1-8 (2019)
Multiple drivers maintain unique species assemblages at multiple biogeographic scales. Here, the authors show that the freezing line is a key barrier generating evolutionary differences in temperate and tropical bird communities across a steep elevat
Externí odkaz:
https://doaj.org/article/4a7e12d8fd0b449989ef41eef463ddc8
Publikováno v:
BMC Bioinformatics, Vol 19, Iss 1, Pp 1-9 (2018)
Abstract Background Sequence logo plots have become a standard graphical tool for visualizing sequence motifs in DNA, RNA or protein sequences. However standard logo plots primarily highlight enrichment of symbols, and may fail to highlight interesti
Externí odkaz:
https://doaj.org/article/8c4f4c382f5043249985545c3cc23fe5