Single-Cell Genomics

Genetics & GenomicsUpdated Oct 5, 2026Version v1

Evidence

Public papers linked to this topic and used as evidence for gaps, timelines, and knowledge views.

127 papers

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Showing 109-120 of total 127 evidence records.

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2021OpenAlexSupporting evidence137 citations

Chromatin-accessibility estimation from single-cell ATAC-seq data with scOpen

Zhijian Li; Christoph Kuppe; Susanne Ziegler; Mingbo Cheng; Nazanin Kabgani; Sylvia Menzel; Martin Zenke; Rafael Kramann; Ivan G. Costa

Nov 4, 2021Nature Communications

2021CrossrefSupporting evidence22 citations

Enhancing Our Understanding of Plant Cell-to-Cell Interactions Using Single-Cell Omics

Sandra Thibivilliers; Marc Libault

Aug 5, 2021Frontiers in Plant Science

2021OpenAlexSupporting evidence127 citations

scGCN is a graph convolutional networks algorithm for knowledge transfer in single cell omics

Qianqian Song; Jing Su; Wei Zhang

Jun 22, 2021Nature Communications

2021OpenAlexSupporting evidence17K citations

Integrated analysis of multimodal single-cell data

Yuhan Hao; Stephanie Hao; Erica Andersen‐Nissen; William M. Mauck; Shiwei Zheng; Andrew Butler; Madeline J. Lee; Aaron J. Wilk; Charlotte A. Darby; Michael Zager; Paul Hoffman; Marlon Stoeckius; Efthymia Papalexi; Eleni P. Mimitou; Jaison Jain; Avi Srivastava; Tim Stuart; Lamar M. Fleming; Bertrand Z. Yeung; Angela J. Rogers; M. Juliana McElrath; Catherine A. Blish; Raphaël Gottardo; Peter Smibert; Rahul Satija

May 31, 2021Cell

2021OpenAlexSupporting evidence53 citations

simATAC: a single-cell ATAC-seq simulation framework

Zeinab Navidi; Lin Zhang; Bo Wang

Mar 4, 2021Genome biology

2021OpenAlexSupporting evidence811 citations

SPOTlight: seeded NMF regression to deconvolute spatial transcriptomics spots with single-cell transcriptomes

Marc Elosua-Bayés; Paula Nieto; Elisabetta Mereu; Marta Gut; Holger Heyn

Jan 15, 2021Nucleic Acids Research

2020OpenAlexSupporting evidence1,805 citations

SoupX removes ambient RNA contamination from droplet-based single-cell RNA sequencing data

Matthew D. Young; Sam Behjati

Dec 1, 2020GigaScience

2020OpenAlexSupporting evidence51 citations

Single-cell ATAC-seq signal extraction and enhancement with SCATE

Zhicheng Ji; Weiqiang Zhou; Wenpin Hou; Hongkai Ji

Jul 3, 2020Genome biology

2020OpenAlexSupporting evidence1,251 citations

A benchmark of batch-effect correction methods for single-cell RNA sequencing data

Hoa Thi Tran; Kok Siong Ang; Marion Chevrier; Xiaomeng Zhang; Nicole Yee Shin Lee; Michelle Goh; Jinmiao Chen

Jan 16, 2020Genome biology

2019OpenAlexSupporting evidence254 citations

SCALE method for single-cell ATAC-seq analysis via latent feature extraction

Lei Xiong; Kui Xu; Tian Kang; Yanqiu Shao; Lei Tang; Ge Gao; Michael Zhang; Tao Jiang; Qiangfeng Cliff Zhang

Oct 8, 2019Nature Communications

2019OpenAlexSupporting evidence705 citations

A comparison of automatic cell identification methods for single-cell RNA sequencing data

Tamim Abdelaal; Lieke Michielsen; Davy Cats; Dylan Hoogduin; Hailiang Mei; Marcel Reinders; Ahmed Mahfouz

Sep 9, 2019Genome biology

2019OpenAlexSupporting evidence1,244 citations

EmptyDrops: distinguishing cells from empty droplets in droplet-based single-cell RNA sequencing data

participants in the 1st Human Cell Atlas Jamboree; Aaron T. L. Lun; Samantha J. Riesenfeld; Tallulah Andrews; The Phuong Dao; Tomás Gomes; John C. Marioni

Mar 22, 2019Genome biology