Concepedia

DeCoN: Genome-wide Analysis of In Vivo Transcriptional Dynamics during Pyramidal Neuron Fate Selection in Neocortex

Bradley J. Molyneaux, Loyal A. Goff, Andrea C. Brettler, Hsu-Hsin Chen, Juliana Brown, Siniša Hrvatin, John L. Rinn, Paola Arlotta

Neuron · 2014 · 297 citations · 51 references

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51

Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles

Aravind Subramanian, Pablo Tamayo, Vamsi K. Mootha et al. · Proceedings of the National Academy of Sciences · 2005 · 56.7K citations · Full text

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Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

Cole Trapnell, Brian A. Williams, Geo Pertea et al. · Nature Biotechnology · 2010 · 16.5K citations

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TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

Daehwan Kim, Geo Pertea, Cole Trapnell et al. · Genome biology · 2013 · 13.7K citations · Full text

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Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

Cole Trapnell, Adam Roberts, Loyal A. Goff et al. · Nature Protocols · 2012 · 12.9K citations · Full text

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Bioconductor: open software development for computational biology and bioinformatics

Robert Gentleman, Vincent J. Carey, Douglas M. Bates et al. · Genome biology · 2004 · 12.5K citations · Full text

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