ATAC-seq（Assay for Transposase – Accessible Chromatin with highthroughput sequencing），通过Tn5转座酶...
Atf4 regulates angiogenic differences between alveolar bone and long bone macrophages by regulating M1 polarization, based on single-cell RNA sequencing, RNA-seq and ATAC-seq analysis. J Transl Med. 2023 Mar 14;21(1):193. doi: 10.1186/s12967-023-04046-1. PMID: 36918894; PMCID: PMC10012539...
Chromatin accessibility measurement has become a widely used method to understand gene regulation and identify cell types and states. A common technique is the “assay for transposase-accessible chromatin using sequencing” (ATAC-seq) [1], in which a hyperactive mutant of the Tn5 transposase inserts...
Integrating bulk and single-cell RNA sequencing data: unveiling RNA methylation and autophagy-related signatures in chronic obstructive pulmonary disease patients Article Open access 01 February 2025 Characterization of the COPD alveolar niche using single-cell RNA sequencing Article Open access 25 Janu...
Total cellular RNA was purified using the Qiagen RNAeasy Mini kit and samples with RNA integrity number ≥7 were further processed for sequencing. Libraries were prepared using Illumina TruSeq RNA Sample kit (Illumina, San Diego, CA) following the manufacturer’s recommended procedure. Briefly, tot...
ALVEOLAR macrophagesHIVLIPOPROTEIN lipaseCD4 lymphocyte countRNA sequencingHIV-positive personsPeople with HIV remain at greater risk for both infectious and non-infectious pulmonary diseases even after antiretroviral therapy initiation and CD4 cell count recovery. These clinical risks reflect persistent HIV-...
Single-cell RNA sequencing (scRNA-seq)1 has been widely used and made great progress in the fields of biology and medicine. Recently, the advances in single-cell technologies have enabled profiling single cells from different layers, such as chromatin accessibility (scATAC-seq)2,3, spatial transc...
Here, we describe the ChIP-Atlas 2021 update, which collected all the ATAC-seq (n = 66 104) and whole-genome bisulfite sequencing (WGBS) data (n = 51 074) for the six representative model organisms. This update makes ChIP-Atlas, to our knowledge, the first and only web service that ...
Single-cell RNA Sequencing - raw data This paper ArrayExpress: E-MTAB-9067 Single-cell ATAC Sequencing - raw data This paper ArrayExpress: E-MTAB-9068 Analyzed data This paper https://gitlab.com/cvejic-group/integrative-scrna-scatac-human-foetal#data Human reference genome NCBI GRCh38 Genome Re...
Single-cell RNA sequencing (scRNA-seq) allows the comprehensively profiling of the gene expression changes observed in development at a cellular level [19], while single-cell transposase-accessible chromatin sequencing (scATAC-seq) allows the analysis of chromatin accessibility and transcription factor (...