Concepedia

High-throughput profiling of chemical-induced gene expression across 93,644 perturbations

Yumei Wang, Wei Shao, Qingzhou Li, Xiankuo Yu, Mingming Wei, Yu Gui, Shengrong Li, Qin Pan, Chao Hu, Guochen Zhang,

Nature Methods · 2025 · 11 citations · 48 references

DOI

Concepts

References

48

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

Michael I. Love, Wolfgang Huber, Simon Anders · Genome biology · 2014 · 100.5K citations · Full text

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Fast gapped-read alignment with Bowtie 2

Ben Langmead, Steven L. Salzberg · Nature Methods · 2012 · 61.1K citations

, , +11

HTSeq—a Python framework to work with high-throughput sequencing data

Simon Anders, Paul Theodor Pyl, Wolfgang Huber · Bioinformatics · 2014 · 22.7K citations · Full text

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Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype

Daehwan Kim, Joseph M. Paggi, Chanhee Park et al. · Nature Biotechnology · 2019 · 15.7K citations · Full text

, , +12

The Connectivity Map: Using Gene-Expression Signatures to Connect Small Molecules, Genes, and Disease

Justin Lamb, Emily Crawford, D. D. Peck et al. · Science · 2006 · 5.5K citations

, , +16