Chromatin accessibility profiling methods
L Minnoye, GK Marinov, T Krausgruber, L Pan… - Nature Reviews …, 2021 - nature.com
Chromatin accessibility, or the physical access to chromatinized DNA, is a widely studied
characteristic of the eukaryotic genome. As active regulatory DNA elements are generally …
characteristic of the eukaryotic genome. As active regulatory DNA elements are generally …
[HTML][HTML] Inferring interaction networks from multi-omics data
A major goal in systems biology is a comprehensive description of the entirety of all complex
interactions between different types of biomolecules—also referred to as the interactome …
interactions between different types of biomolecules—also referred to as the interactome …
ReMap 2022: a database of Human, Mouse, Drosophila and Arabidopsis regulatory regions from an integrative analysis of DNA-binding sequencing experiments
F Hammal, P De Langen, A Bergon… - Nucleic acids …, 2022 - academic.oup.com
Abstract ReMap (https://remap. univ-amu. fr) aims to provide manually curated, high-quality
catalogs of regulatory regions resulting from a large-scale integrative analysis of DNA …
catalogs of regulatory regions resulting from a large-scale integrative analysis of DNA …
The UCSC genome browser database: 2021 update
For more than two decades, the UCSC Genome Browser database (https://genome. ucsc.
edu) has provided high-quality genomics data visualization and genome annotations to the …
edu) has provided high-quality genomics data visualization and genome annotations to the …
JASPAR 2020: update of the open-access database of transcription factor binding profiles
Abstract JASPAR (http://jaspar. genereg. net) is an open-access database of curated, non-
redundant transcription factor (TF)-binding profiles stored as position frequency matrices …
redundant transcription factor (TF)-binding profiles stored as position frequency matrices …
[PDF][PDF] Warburg-like metabolic transformation underlies neuronal degeneration in sporadic Alzheimer's disease
L Traxler, JR Herdy, D Stefanoni, S Eichhorner… - Cell Metabolism, 2022 - cell.com
The drivers of sporadic Alzheimer's disease (AD) remain incompletely understood. Utilizing
directly converted induced neurons (iNs) from AD-patient-derived fibroblasts, we identified a …
directly converted induced neurons (iNs) from AD-patient-derived fibroblasts, we identified a …
ChEA3: transcription factor enrichment analysis by orthogonal omics integration
AB Keenan, D Torre, A Lachmann… - Nucleic acids …, 2019 - academic.oup.com
Identifying the transcription factors (TFs) responsible for observed changes in gene
expression is an important step in understanding gene regulatory networks. ChIP-X …
expression is an important step in understanding gene regulatory networks. ChIP-X …
The UCSC genome browser database: 2019 update
Abstract The UCSC Genome Browser (https://genome. ucsc. edu) is a graphical viewer for
exploring genome annotations. For almost two decades, the Browser has provided …
exploring genome annotations. For almost two decades, the Browser has provided …
Cistrome Data Browser: expanded datasets and new tools for gene regulatory analysis
Abstract The Cistrome Data Browser (DB) is a resource of human and mouse cis-regulatory
information derived from ChIP-seq, DNase-seq and ATAC-seq chromatin profiling assays …
information derived from ChIP-seq, DNase-seq and ATAC-seq chromatin profiling assays …
JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework
Abstract JASPAR (http://jaspar. genereg. net) is an open-access database of curated, non-
redundant transcription factor (TF)-binding profiles stored as position frequency matrices …
redundant transcription factor (TF)-binding profiles stored as position frequency matrices …