Related references
Note: Only part of the references are listed.SCENIC plus : single-cell multiomic inference of enhancers and gene regulatory networks
Carmen Bravo Gonzalez-Blas et al.
NATURE METHODS (2023)
Hydrop enables droplet-based single-cell ATAC-seq and single-cell RNA-seq using dissolvable hydrogel beads
Florian De Rop et al.
ELIFE (2022)
Massively parallel single-cell mitochondrial DNA genotyping and chromatin profiling
Caleb A. Lareau et al.
NATURE BIOTECHNOLOGY (2021)
A single-cell atlas of chromatin accessibility in the human genome
Kai Zhang et al.
CELL (2021)
Twelve years of SAMtools and BCFtools
Petr Danecek et al.
GIGASCIENCE (2021)
High-content single-cell combinatorial indexing
Ryan M. Mulqueen et al.
NATURE BIOTECHNOLOGY (2021)
Chromatin accessibility profiling methods
Liesbeth Minnoye et al.
NATURE REVIEWS METHODS PRIMERS (2021)
Inference and effects of barcode multiplets in droplet-based single-cell assays
Caleb A. Lareau et al.
NATURE COMMUNICATIONS (2020)
Benchmarking single-cell RNA-sequencing protocols for cell atlas projects
Elisabetta Mereu et al.
NATURE BIOTECHNOLOGY (2020)
Systematic comparison of single-cell and single-nucleus RNA-sequencing methods
Jiarui Ding et al.
NATURE BIOTECHNOLOGY (2020)
A human cell atlas of fetal chromatin accessibility
Silvia Domcke et al.
SCIENCE (2020)
Sampling time-dependent artifacts in single-cell genomics studies
Ramon Massoni-Badosa et al.
GENOME BIOLOGY (2020)
cisTopic: cis-regulatory topic modeling on single-cell ATAC-seq data
Carmen Bravo Gonzalez-Blas et al.
NATURE METHODS (2019)
Scrublet: Computational Identification of Cell Doublets in Single-Cell Transcriptomic Data
Samuel L. Wolock et al.
CELL SYSTEMS (2019)
Comprehensive Integration of Single-Cell Data
Tim Stuart et al.
CELL (2019)
Droplet-based combinatorial indexing for massive-scale single-cell chromatin accessibility
Caleb A. Lareau et al.
NATURE BIOTECHNOLOGY (2019)
The ENCODE Blacklist: Identification of Problematic Regions of the Genome
Haley M. Amemiya et al.
SCIENTIFIC REPORTS (2019)
Massively parallel single-cell chromatin landscapes of human immune cell development and intratumoral T cell exhaustion
Ansuman T. Satpathy et al.
NATURE BIOTECHNOLOGY (2019)
Fast, sensitive and accurate integration of single-cell data with Harmony
Ilya Korsunsky et al.
NATURE METHODS (2019)
ATACseqQC: a Bioconductor package for post-alignment quality assessment of ATAC-seq data
Jianhong Ou et al.
BMC GENOMICS (2018)
A Single-Cell Atlas of In Vivo Mammalian Chromatin Accessibility
Darren A. Cusanovich et al.
CELL (2018)
SCANPY: large-scale single-cell gene expression data analysis
F. Alexander Wolf et al.
GENOME BIOLOGY (2018)
Nextflow enables reproducible computational workflows
Paolo Di Tommaso et al.
NATURE BIOTECHNOLOGY (2017)
Sex differences in immune responses
Sabra L. Klein et al.
NATURE REVIEWS IMMUNOLOGY (2016)
Single-cell chromatin accessibility reveals principles of regulatory variation
Jason D. Buenostro et al.
NATURE (2015)
A global reference for human genetic variation
David M. Altshuler et al.
NATURE (2015)
i-cisTarget 2015 update: generalized cis-regulatory enrichment analysis in human, mouse and fly
Hana Imrichova et al.
NUCLEIC ACIDS RESEARCH (2015)
An integrated encyclopedia of DNA elements in the human genome
Ian Dunham et al.
NATURE (2012)
i-cisTarget: an integrative genomics method for the prediction of regulatory features and cis-regulatory modules
Carl Herrmann et al.
NUCLEIC ACIDS RESEARCH (2012)
Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities
Sven Heinz et al.
MOLECULAR CELL (2010)
The Sequence Alignment/Map format and SAMtools
Heng Li et al.
BIOINFORMATICS (2009)
Model-based Analysis of ChIP-Seq (MACS)
Yong Zhang et al.
GENOME BIOLOGY (2008)
BioMart and Bioconductor: a powerful link between biological databases and microarray data analysis
S Durinck et al.
BIOINFORMATICS (2005)
Share Paper
