Results 41 to 50 of about 574,745 (303)
intePareto: an R package for integrative analyses of RNA-Seq and ChIP-Seq data
BMC Genomics, 2020 Background RNA-Seq, the high-throughput sequencing (HT-Seq) of mRNAs, has become an essential tool for characterizing gene expression differences between different cell types and conditions.
Yingying Cao +2 more
doaj +1 more source
Computational methodology for ChIP‐seq analysis [PDF]
Quantitative Biology, 2013 Chromatin immunoprecipitation coupled with massive parallel sequencing (ChIP‐seq) is a powerful technology to identify the genome‐wide locations of DNA binding proteins such as transcription factors or modified histones. As more and more experimental laboratories are adopting ChIP‐seq to unravel the transcriptional and epigenetic regulatory mechanisms,
Hyunjin Shin +4 more
openaire +2 more sources
ENCODE-DCC/chip-seq-pipeline2: v2.2.0
, 2022 Upgrade Caper to >=2.2.0 for new HPC features. $ pip install caper>=2.2.0 --upgrade Conda environment name change: encode-chip-seq-pipeline -> encd-chip Please reinstall your Conda environment after updating pipeline's git repo.
Jin wook Lee +5 more
core +1 more source
Genomic location analysis by ChIP‐Seq [PDF]
Journal of Cellular Biochemistry, 2009 AbstractThe interaction of a multitude of transcription factors and other chromatin proteins with the genome can influence gene expression and subsequently cell differentiation and function. Thus systematic identification of binding targets of transcription factors is key to unraveling gene regulation networks.
Artem, Barski, Keji, Zhao
openaire +2 more sources
, 2021 The Quick Files feature was discontinued and it’s files were migrated into this Project on March 11, 2022. The file URL’s will still resolve properly, and the Quick Files logs are available in the Project’s Recent ...
Chip Seq
core +6 more sources
CSA: a web service for the complete process of ChIP-Seq analysis
BMC Bioinformatics, 2019 Background Chromatin immunoprecipitation sequencing (ChIP-seq) is a technology that combines chromatin immunoprecipitation (ChIP) with next generation of sequencing technology (NGS) to analyze protein interactions with DNA.
Min Li +4 more
doaj +1 more source
Imputation for transcription factor binding predictions based on deep learning. [PDF]
PLoS Computational Biology, 2017 Understanding the cell-specific binding patterns of transcription factors (TFs) is fundamental to studying gene regulatory networks in biological systems, for which ChIP-seq not only provides valuable data but is also considered as the gold standard ...
Qian Qin, Jianxing Feng
doaj +1 more source
PICS: Probabilistic Inference for ChIP-seq [PDF]
Biometrics, 2010 ChIP-seq, which combines chromatin immunoprecipitation with massively parallel short-read sequencing, can profile in vivo genome-wide transcription factor-DNA association with higher sensitivity, specificity and spatial resolution than ChIP-chip. While it presents new opportunities for research, ChIP-seq poses new challenges for statistical analysis ...
Zhang, Xuekui +6 more
openaire +4 more sources
ChIP-Seq of HNRNPL in proliferating keratinocytes.
, 2021 List of the genes bound by HNRNPL including the coordinates where the peaks were found. ChIP-Seq, chromatin immunoprecipitation sequencing; HNRNPL, heterogeneous nuclear ribonucleoprotein L. (XLSX)
George L. Sen (6847421) +4 more
core +1 more source
Impact of genome assembly status on ChIP-Seq and ChIP-PET data mapping
BMC Research Notes, 2009 Background ChIP-Seq and ChIP-PET can potentially be used with any genome for genome wide profiling of protein-DNA interaction sites. Unfortunately, it is probable that most genome assemblies will never reach the quality of the human genome assembly ...
Sachs Laurent, Buisine Nicolas
doaj +1 more source