Results 141 to 150 of about 176,761 (289)

ATAC-seq Bioanalyzer profiles from iPSC-derived macrophages

, 2017
<p>Agilent Bioanalyzer profiles for the iPSC-derived macrophage ATAC-seq samples.
Gaffney, Daniel (5252329), Rodrigues, Julia (5252332), Alasoo, Kaur (4929421), Rodrigues, Julia, Gaffney, Daniel, Alasoo, Kaur   +5 more
core   +1 more source

The epigenetic landscape of plant defense: Unlocking nature's toolkit for new plant protection

New Plant Protection, EarlyView.
This review examines how epigenetic mechanisms regulate plant immune gene activation, repression, and priming, then links these natural regulatory layers to emerging epigenetic editing, discussing their potential for precise, heritable crop protection and the challenges.
Xuexia Liu, Zhenhui Zhong
wiley   +1 more source

ATAC-seq QC and peak calling

ATAC-seq QC and peak calling. need bam file after bwa mapping and duplicated reads marking(biobambam2 or Picard)our cluster is redhat, you might also need install packagesmodule load boost/1.54.0 bedtools/2.17.0 perl/5.10.1 bedops/2.4.35 R/4.3.0 ucsc ...
Beisi Xu (6037520)
core   +1 more source

Quantum‐Enhanced Weighted Gene Co‐Expression Network Analysis Reveals Regulatory Networks Underlying Sexual Size Dimorphism in Macrobrachium nipponense

Integrative Zoology, EarlyView.
A quantum‐enhanced weighted gene co‐expression network analysis framework integrating quantum amplitude amplification is developed to overcome sample size constraints in zoological genomics. This noise‐tolerant analytical strategy enables robust network reconstruction for non‐model species with limited biological replicates.
Seok‐Jin Kang, Hongchul Shin
wiley   +1 more source

quaqc: efficient and quick ATAC-seq quality control and filtering

Bioinformatics
Abstract Summary “quaqc” allows for ATAC-seq-specific quality control and read filtering of NGS data with minimal processing time and extremely low memory overhead. An efficient scaling implementation allows for a wide range of use cases, from processing individual samples processed on personal ...
Benjamin Jean-Marie Tremblay, Julia I. Qüesta   +1 more
openaire   +5 more sources

Processed Atac-Seq Data For 100 Lcls

, 2018
Processed ATAC-seq data for 100 LCLs. The raw alignment data is found at ENA (Accession ID: ERP110508).
Kumasaka, Natsuhiko, Knights, Andrew, Gaffney, Daniel   +2 more
openaire   +2 more sources

Chromatin Accessibility Profiling of the Canine Brain Reveals Regulatory Programs Associated With Dog‐Wolf Divergence and Human Psychiatric Risk

Integrative Zoology, EarlyView.
The dog is a valuable model for studying social behavior and neuropsychiatric disease. We generated an ATAC‐seq atlas of 7 brain regions and pituitary from 4 beagles, identifying 251,492 CREs. Integrating dog‐wolf divergence revealed tissue‐specific CREs overlapping divergent loci, including neuronal and neuroendocrine genes.
Biao Deng, Junze Wu, Ye Liu, Xuan Li, Yuanfang Xu, Rongjie Duan, Yibo Tong, Jinsheng Xu, Mengyang Ni, Zijie Scott Zhang, Dan Xue, Bowen Zhou, Yanhu Liu, Rui Cheng, Yuedong Zhang, Ya‐Ping Zhang   +15 more
wiley   +1 more source

ATAC-seq data quality control and evaluation of the correlation between Samples.

(A) Distribution of ATAC-seq fragment size in each sample. (B) A heatmap detailing chromatin accessibility around the transcript start site (TSS), with a meta plot displayed above the heatmap to provide a summary view of TSS accessibility across all ...
Jipeng Wang (419413), Yuxiang Xie (3565076), Yanmin You (11944854), Wei Zhang (405), Shaoyun Cheng (8717712), Xiaoling Wang (6503), Wei Hu (6560), Lei Xiu (498114), Fang Luo (277928), Yan Lu (32611), Cun Yi (11944857)   +10 more
core   +1 more source

Serotonin Degradation and Lipid Metabolism Regulate Human Tc2 Cell Effector Functions

Allergy, EarlyView.
Human Tc2 cells exhibit a metabolically active phenotype characterized by enhanced glycolysis, mitochondrial respiration, and fatty acid uptake dependent on PPARγ. Alarmins strongly amplify IL‐5 and IL‐13 production in Tc2 cells, supporting a shared immunometabolic program across type 2 lymphocytes.
Sabrina de Souza Ferreira, Lisa Holla, Sophia Björkander, Marie Kaarup Bek, Lorenz Wirth, Patrick A. Shearer, Jesper Säfholm, Erik Sachs, Mamdoh Al‐Ameri, Kasra Vali, Sandra Ekström, Erik Melén, Jenny Mjösberg, Christopher Andrew Tibbitt   +13 more
wiley   +1 more source

MOESM1 of Regulatory chromatin landscape in Arabidopsis thaliana roots uncovered by coupling INTACT and ATAC-seq

, 2018
Additional file 1: Fig. S1. Browser view of a representative locus chosen as a positive QC. Table S1. Mapping and peak calling results for the three biological repeats shown in Fig. 2. Table S2.
Avital Sarusi-Portuguez (6104570), Jennifer Benichou (5269697), Assaf Mosquna (52999), Miriam Tannenbaum (6104567), Olga Loza (2720296), Ofir Hakim (6104576), Ronen Krispil (6104573), Michal Schwartz (84472)   +7 more
core   +1 more source