Results 91 to 100 of about 673,559 (305)

Wellington : a novel method for the accurate identification of digital genomic footprints from DNase-seq data [PDF]

, 2013
The expression of eukaryotic genes is regulated by cis-regulatory elements such as promoters and enhancers, which bind sequence-specific DNA-binding proteins.
Bonifer, Constanze, Piper, Jason, Cockerill, Peter N., Elze, Markus C., Cockerill, Peter N, Bonifer, Constanze; id_orcid, Ott, Sascha, Elze, Markus C, Cauchy, Pierre   +8 more
core   +1 more source

GHRHR Deficiency Enhances Retinal Ganglion Cell Survival and Visual Functions in Experimental Glaucoma by Inhibiting Ferroptosis

Advanced Science, EarlyView.
Glaucoma, a major cause of blindness, involves retinal ganglion cell (RGC) degeneration. This study shows growth hormone‐releasing hormone receptor (GHRHR) deficiency preserves RGC survival and restores vision, unlike activation which only aids survival.
Yan Tong, Ming Ho Yam, Jiaxin Zhang, Lin Du, Linbin Zhou, Yolanda Wong Ying Yip, Bo Man Ho, Hemlata Bisnauthsing, Jiahui Li, Ivan Kong, Shushu Xu, Changzhen Fu, Karl K.H. So, Joaquim S.L. Vong, Ling‐Ping Cen, Ming‐Ming Yang, Khazeema Yousaf, Mai Har Sham, Sun On Chan, Poemen P. Chan, Chi Pui Pang, Clement C. Tham, Jing Na He, Jian Li, Wai Kit Chu   +24 more
wiley   +1 more source

Informative sequence-based models for fragment distributions in ChIP-seq, RNA-seq and ChIP-chip data [PDF]

Many high throughput sequencing protocols for RNA and DNA require that the polynucleic acid is fragmented so that the identity of a limited number of nucleic acids of one or both of the ends of the fragments can be determined by sequencing. The nucleic
Dyer, Nigel
core  

ATAC2GRN: optimized ATAC-seq and DNase1-seq pipelines for rapid and accurate genome regulatory network inference

BMC Genomics, 2018
Background Chromatin accessibility profiling assays such as ATAC-seq and DNase1-seq offer the opportunity to rapidly characterize the regulatory state of the genome at a single nucleotide resolution.
Thomas J. F. Pranzatelli, Drew G. Michael, John A. Chiorini   +2 more
doaj   +1 more source

P-TEFb/ChIP-Seq-Peak: v1.0.0

<p>ChIP-Seq-Peak</p ...
David H. Price
core   +1 more source

Nuclear RNA sequencing of the mouse erythroid cell transcriptome [PDF]

, 2012
Copyright @ 2012 The Authors. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source ...
Umlauf David, Catherine A. Moir (115926), Chakalova, L, Peter Fraser, Eskiw, CH, Mitchell, JA, Fraser, P, Mitchell Jennifer A., Schoenfelder, S, Umlauf, D, Clay Ieuan, Chakalova Lyubomira, David Umlauf (115924), Ieuan Clay, Jennifer A. Mitchell (32136), Schoenfelder Stefan, Chih-Yu Chen, Eskiw Christopher H., Stefan Schoenfelder, Ieuan Clay (115922), Chih-yu Chen (4730856), Fraser Peter, Takashi Nagano, Christopher H. Eskiw (115928), Takashi Nagano (115932), Christopher H Eskiw, Nagano Takashi, Lyubomira Chakalova, Nagano, T, Peter Fraser (32141), Stefan Schoenfelder (115930), Chen, CY, Moir, CA, Lyubomira Chakalova (23035), Chen Chih-yu, Jennifer A Mitchell, Clay, I, David Umlauf, Catherine A Moir, Moir Catherine A.   +39 more
core   +2 more sources

Microglial Deubiquitinase OTUD7B Stabilizes STAT3 to Promote Neuroinflammation and Cognitive Decline in Alzheimer's Disease

Advanced Science, EarlyView.
. ABSTRACT Neuroinflammation driven by microglial activation is a defining feature of Alzheimer's disease (AD), yet the molecular mechanisms sustaining this proinflammatory state remain unclear. Here, we identify the deubiquitinase OTUD7B as a critical regulator of microglial activation and AD pathology.
Luyao Li, Hao Tang, Qin Yu, Yuyang Zhang, Binglu Shi, Ying Kong, Leiyu Xu, Jingjing Shao, Chenghong Hu, Lingyu She, Zhe Wang, Haiyi Chen, Aleksandr V. Samorodov, Gang Cao, Xia Zhao, Yi Wang   +15 more
wiley   +1 more source

Universal count correction for high-throughput sequencing.

PLoS Computational Biology, 2014
We show that existing RNA-seq, DNase-seq, and ChIP-seq data exhibit overdispersed per-base read count distributions that are not matched to existing computational method assumptions.
Tatsunori B Hashimoto, Matthew D Edwards, David K Gifford   +2 more
doaj   +1 more source

ChIP-seq summary.

, 2014
(A) Schematic of our RNA-seq and ChIP-seq assays, showing the various antibodies used for ChIP-seq and the total number of peaks obtained for each antibody and treatment. (B) Overlap between DMSO and rifampin treated ChIP-seq peaks for each antibody.
Anuradha Ramamoorthy (638650), Nathan D. Trinklein (219929), Walter L. Eckalbar (618757), Yunlong Liu (46477), Marcelo R. Luizon (638648), Todd C. Skaar (638651), Xuefeng Sun (408801), Zeruesenay Desta (401103), Shelley Force Aldred (264064), Kathleen M. Giacomini (259990), Nadav Ahituv (34361), Stacy L. Jones (638649), Robin P. Smith (159792), Kari M. Morrissey (638647), Thomas J. Hoffmann (194301)   +14 more
core   +1 more source

Lactiplantibacillus Plantarum GUANKE Alleviates Allergic Asthma by Restricting Monocyte‐to‐DC Differentiation Via Microbiota‐Associated IAA

Advanced Science, EarlyView.
Lactiplantibacillus plantarum GUANKE remodels the indigenous gut microbiota and is associated with microbiota‐dependent restoration of circulating IAA. IAA treatment attenuates JAK3‐STAT3 and Jag1‐Notch4‐Hey1 signaling and reduces CX3CR1+Ly6C− monocytic precursor generation and pulmonary CD11b+ DC accumulation, together with reduced Th2 inflammation ...
Yujia He, Jielan Mi, Zhiping Zhao, Xiao Zhang, Zhihan Yang, Kun Yue, Yuanming Huang, Liqiong Song, Xiaoting Wen, Jianguo Xu, Zhihong Ren   +10 more
wiley   +1 more source