(Q38616267)

23 February 2018

title

chromVAR: inferring transcription-factor-associated accessibility from single-cell epigenomic data (English)

1 reference

23 February 2018

4

William J Greenleaf

1 reference

23 February 2018

3

Jason D Buenrostro

1 reference

23 February 2018

author name string

Alicia N Schep

series ordinal

1

1 reference

23 February 2018

Beijing Wu

series ordinal

2

1 reference

23 February 2018

publication date

21 August 2017

1 reference

23 February 2018

published in

Nature Methods

1 reference

23 February 2018

volume

14

1 reference

23 February 2018

issue

10

1 reference

23 February 2018

page(s)

975-978

1 reference

23 February 2018

https://scigraph.springernature.com/pub.10.1038/nmeth.4401

exact match

0 references

cites work

Lineage-specific and single-cell chromatin accessibility charts human hematopoiesis and leukemia evolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Characterizing transcriptional heterogeneity through pathway and gene set overdispersion analysis

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Genome-wide detection of DNase I hypersensitive sites in single cells and FFPE tissue samples.

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

JASPAR 2016: a major expansion and update of the open-access database of transcription factor binding profiles

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Single-cell chromatin accessibility reveals principles of regulatory variation

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Multiplex single cell profiling of chromatin accessibility by combinatorial cellular indexing

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Single-cell DNA methylome sequencing and bioinformatic inference of epigenomic cell-state dynamics

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Integrative analysis of 111 reference human epigenomes

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Tissue-resident macrophage enhancer landscapes are shaped by the local microenvironment.

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Determination and inference of eukaryotic transcription factor sequence specificity

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

HOXA9 promotes hematopoietic commitment of human embryonic stem cells.

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Massively parallel single-cell RNA-seq for marker-free decomposition of tissues into cell types

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Systematic discovery and characterization of regulatory motifs in ENCODE TF binding experiments

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

The accessible chromatin landscape of the human genome

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Fast gapped-read alignment with Bowtie 2

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

The transcription factors T-bet and Eomes control key checkpoints of natural killer cell maturation

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Tracing the derivation of embryonic stem cells from the inner cell mass by single-cell RNA-Seq analysis

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

MOODS: fast search for position weight matrix matches in DNA sequences

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Model-based analysis of ChIP-Seq (MACS)

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Enhancement of hematopoietic stem cell repopulating capacity and self-renewal in the absence of the transcription factor C/EBP alpha

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

PU.1 induces myeloid lineage commitment in multipotent hematopoietic progenitors

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Arrested development of embryonic red cell precursors in mouse embryos lacking transcription factor GATA-1

23 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5623146

Coexistence of LMPP-like and GMP-like Leukemia Stem Cells in Acute Myeloid Leukemia

23 June 2018

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNMETH.4401

inferred from DOI database lookup

7 January 2021

based on heuristic

Cutadapt removes adapter sequences from high-throughput sequencing reads

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNMETH.4401

inferred from DOI database lookup

7 January 2021

based on heuristic

Comparing community structure identification

1 reference

Crossref

https://api.crossref.org/works/10.1038%2FNMETH.4401

inferred from DOI database lookup

7 January 2021

based on heuristic

Identifiers

DOI

10.1038/NMETH.4401

1 reference

23 February 2018

Dimensions Publication ID

0 references

1 reference

23 February 2018

PubMed publication ID

28825706

1 reference

23 February 2018