Data from: Whole transcriptome RNA-Seq analysis of breast cancer recurrence risk using formalin-fixed paraffin-embedded tumor tissue

Sinicropi D, Qu K, Collin F, Crager M, Liu M, Pelham RJ, Pho M, Dei Rossi A, Jeong J, Scott A, Ambannavar R, Zheng C, Mena R, Esteban JM, Stephans J, Morlan J, Baker J

Date Published: July 16, 2012

DOI: http://dx.doi.org/10.5061/dryad.q760h

 

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Title gene_counts
Downloaded 475 times
Description Counts of trimmed 36 bp reads that mapped uniquely to consolidated exons of genes annotated in RefSeq for 136 patients.
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Title Introns
Downloaded 190 times
Description Counts of trimmed 36 bp reads that mapped uniquely to consolidated introns of genes annotated in RefSeq for 136 patients.
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Title linc_KhalilGenes
Downloaded 117 times
Description Counts of trimmed 36 bp reads that mapped uniquely to the coordinates of 2509 well-documented long-intergenic non-coding lincRNAs (Khalil et al., Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proc Natl Acad Sci U S A 106: 11667-11672, 2009).
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Title intergenics
Downloaded 120 times
Description Counts of trimmed 36 bp reads that mapped uniquely to clusters in intergenic regions of the genome as described in Supplemental Methods.
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Title recurrence
Downloaded 156 times
Description Time to recurrence or censure for 136 patients. VSCode column contains a recurrence flag (1=recurrence, 0=no recurrence). Years column is the time to recurrence or censuring (ie., end of observation without a recurrence).
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When using this data, please cite the original publication:

Sinicropi D, Qu K, Collin F, Crager M, Liu M, Pelham RJ, Pho M, Dei Rossi A, Jeong J, Scott A, Ambannavar R, Zheng C, Mena R, Esteban J, Stephans J, Morlan J, Baker J (2012) Whole transcriptome RNA-Seq analysis of breast cancer recurrence risk using formalin-fixed paraffin-embedded tumor tissue. PLoS ONE 7(7): e40092. http://dx.doi.org/10.1371/journal.pone.0040092

Additionally, please cite the Dryad data package:

Sinicropi D, Qu K, Collin F, Crager M, Liu M, Pelham RJ, Pho M, Dei Rossi A, Jeong J, Scott A, Ambannavar R, Zheng C, Mena R, Esteban JM, Stephans J, Morlan J, Baker J (2012) Data from: Whole transcriptome RNA-Seq analysis of breast cancer recurrence risk using formalin-fixed paraffin-embedded tumor tissue. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.q760h
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