Results 61 to 70 of about 176,761 (289)
Charting Endocrine Progenitors Across Species and Organs
Advanced Science, EarlyView.Endocrine progenitors give rise to the hormone‐producing cells of the pancreas and intestine. Using single‐cell multiomics and proteomics, this study compares these progenitors across species, systems, and organs, mapping the conserved and species‐specific gene regulatory networks that guide their formation.
Changying Jing +21 more
wiley +1 more source
Cell type-specific chromatin accessibility analysis in the mouse and human brain
Epigenetics, 2022 The Assay for Transposase Accessible Chromatin by sequencing (ATAC-seq) is becoming popular in the neuroscience field where chromatin regulation is thought to be involved in neurodevelopment, activity-dependent gene regulation, hormonal and environmental
Devin Rocks +5 more
doaj +1 more source
Advanced Science, EarlyView.Deep‐learning‐based signal enhancement is an effective way to recover high‐resolution details from a low‐resolution chromatin contact map. However, due to computational challenges, existing methods commonly divide up the contact map into small patches and create artificial discontinuities at patch boundaries.
Qinyao Li +6 more
wiley +1 more source
ATACAmp: a tool for detecting ecDNA/HSRs from bulk and single-cell ATAC-seq data
BMC Genomics, 2023 Background High oncogene expression in cancer cells is a major cause of rapid tumor progression and drug resistance. Recent cancer genome research has shown that oncogenes as well as regulatory elements can be amplified in the form of extrachromosomal ...
Hansen Cheng +10 more
doaj +1 more source
Protocol for bulk and single-nuclei chromatin accessibility quantification in mouse liver tissue
STAR Protocols, 2023 Summary: The accessibility of different chromatin regions to transcription factors and other DNA-binding proteins is a critical determinant of cell function.
Noga Korenfeld +5 more
doaj +1 more source
BCG HSP70 Reprograms Macrophages via Central Trained Immunity to Suppress Prostate Cancer
Advanced Science, EarlyView.BCG‐derived HSP70 (Dnak) safely induces central trained immunity via epigenetic, metabolic, and O‐GlcNAcylation reprogramming of bone marrow progenitors, driving tumor‐associated macrophages toward an M1‐like phenotype to suppress prostate cancer. ABSTRACT Trained immunity offers a promising yet clinically challenging strategy for cancer immunotherapy,
Peng Liu +12 more
wiley +1 more source
GNNMF: a multi-view graph neural network for ATAC-seq motif finding
BMC GenomicsBackground The Assay for Transposase-Accessible Chromatin using sequencing (ATAC-seq) utilizes the Transposase Tn5 to probe open chromatic, which simultaneously reveals multiple transcription factor binding sites (TFBSs) compared to traditional ...
Shuangquan Zhang +4 more
doaj +1 more source
BMC Genomics, 2022 Background Gene regulation is critical for proper cellular function. Next-generation sequencing technology has revealed the presence of regulatory networks that regulate gene expression and essential cellular functions.
Collin B. Merrill +5 more
doaj +1 more source
lifei176/ChIP-seq-ATAC-seq: ATAC-seq and ChIP-seq
, 2021 This is first ...
lifei176
core +1 more source
Transcript-indexed ATAC-seq for precision immune profiling [PDF]
Nature Medicine, 2018 T cells create vast amounts of diversity in the genes that encode their T cell receptors (TCRs), which enables individual clones to recognize specific peptide-major histocompatibility complex (MHC) ligands. Here we combined sequencing of the TCR-encoding genes with assay for transposase-accessible chromatin with sequencing (ATAC-seq) analysis at the ...
Ansuman T. Satpathy +21 more
openaire +4 more sources