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Multilayered Control of Alternative Splicing Regulatory Networks by Transcription Factors

Hong Han, Ulrich Braunschweig, Thomas Gonatopoulos-Pournatzis, Robert J. Weatheritt, Calley Hirsch, Kevin Ha, Ernest Radovani, Syed Nabeel‐Shah, Tim Sterne‐Weiler, Juli Wang,

Molecular Cell · 2017 · 201 citations · 73 references

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73

Fast gapped-read alignment with Bowtie 2

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

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<tt>edgeR</tt> : a Bioconductor package for differential expression analysis of digital gene expression data

Mark D. Robinson, Davis J. McCarthy, Gordon K. Smyth · Bioinformatics · 2009 · 44.5K citations · Full text

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Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

Ben Langmead, Cole Trapnell, Mihai Pop et al. · Genome biology · 2009 · 23K citations · Full text

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Model-based Analysis of ChIP-Seq (MACS)

Yong Zhang, Tao Liu, Clifford A. Meyer et al. · Genome biology · 2008 · 19.9K citations · Full text

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TopHat: discovering splice junctions with RNA-Seq

Cole Trapnell, Lior Pachter, Steven L. Salzberg · Bioinformatics · 2009 · 12.1K citations · Full text

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