Gene expression and splicing counts from the Yepez, Gusic et al study - non strand-specific

<p><strong>File description:</strong></p> <ol> <li> <p>geneCounts: gene-level counts&nbsp;</p> </li> <li> <p>k_j: split counts spanning from one exon to another.</p> </li> <li> <p>k_theta: non-split counts covering a splice site</p> </li> <li> <p>n_psi3: total split counts from a given acceptor site</p> </li> <li> <p>n_psi5: total split counts from a given donor site</p> </li> <li> <p>n_theta: total split and non-split counts for a given splice site</p> </li> <li> <p>Sample annotation describing each sample from the dataset</p> </li> <li> <p>Description file with global information from the dataset</p> </li> </ol> <p>&nbsp;</p> <p>The gene counts were originated using the GTF file from release 34 of GENCODE <a href="https://www.gencodegenes.org/human/release_34">https://www.gencodegenes.org/human/release_34</a>, and the split and non-split counts contain only the annotated junctions from the same release.</p> <p><strong>Use: </strong>The count matrices are intended to help researchers that are interested in using RNA-Seq data with the purpose of diagnostics. Researchers can merge their own dataset with the downloaded ones, provided the tissue, genome build, strand, and paired-end specifications match. Afterwards, the DROP can be used to compute expression and splicing outliers (<a href="https://github.com/gagneurlab/drop">https://github.com/gagneurlab/drop</a>).</p> <p><strong>Number of samples: </strong>154<br> <strong>Tissue:</strong> Fibroblast<br> <strong>Organism:</strong> Homo sapiens<br> <strong>Genome assembly:</strong> hg19<br> <strong>Gene annotation:</strong> gencode34<br> <strong>Disease (ICD-10: N):</strong> E75: 1, E79: 13, E88: 118, G31: 9, K72: 3, NONE: 10<br> <strong>Strand specific: </strong>FALSE<br> <strong>Paired end: </strong>TRUE<br> <strong>Protocol:&nbsp;</strong>poly(A) enrichment<br> <strong>Dataset contact: </strong>Vicente Yepez, yepez@in.tum.de; Julien Gagneur, gagneur@in.tum.de; Holger Prokisch, prokisch@helmholtz-muenchen.de</p> <p><strong>Citation:</strong> Cite both the resource using Zenodo&#39;s citation&nbsp;and the publication under References</p>