Inferring cellular and molecular processes in single-cell data with non-negative matrix factorization using Python, R and GenePattern Notebook implementations of CoGAPS

Jeanette A. I. Johnson, Ashley P. Tsang, Jacob T. Mitchell, David L. Zhou, Julia Bowden, Emily Davis-Marcisak, Thomas Sherman, Ted Liefeld, Melanie Loth, Loyal A. Goff, Jacquelyn W. Zimmerman, Ben Kinny-Köster, Elizabeth M. Jaffee, Pablo Tamayo, Jill P. Mesirov, Michael Reich, Elana J. Fertig, Genevieve L. Stein-O’Brien

Published: 2023-11-20 DOI: 10.1038/s41596-023-00892-x

Non-negative matrix factorization

Single-cell RNA-sequencing

CoGAPS

Python

R

AI 解读

Supplementary information

Supplementary Information

Supplementary notes 1–7, materials 1–8

Tutorial: guidelines for the computational analysis of single-cell RNA sequencing data

ProBac-seq, a bacterial single-cell RNA sequencing methodology using droplet microfluidics and large oligonucleotide probe sets

Identification of cancer-related mutations in human pluripotent stem cells using RNA-seq analysis

Spiral volumetric optoacoustic tomography for imaging whole-body biodynamics in small animals

Genetic manipulation and immortalized culture of ex vivo primary human germinal center B cells

Tutorial: design and execution of CRISPR in vivo screens

Reproducible strategy for excisional skin-wound-healing studies in mice

CRISPR–Cas9-mediated chromosome engineering inArabidopsis thaliana

Human primordial germ cell-like cells specified from resetting precursors develop in human hindgut organoids

Tracking endocytosis and intracellular distribution of spherical nucleic acids with correlative single-cell imaging

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Inferring cellular and molecular processes in single-cell data with non-negative matrix factorization using Python, R and GenePattern Notebook implementations of CoGAPS

Supplementary information

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