THInCR - The HPV Induced Cancer Resource
THInCR - Home Page
Description: Welcome to THInCR suite of tools, which allows a wide variety of statistical comparisons for cellular miRNA and mRNA expression patterns for the TCGA cervical carcinoma (CESC) and head & neck cancer (HNSC) datasets. The primary focus of THInCR is to explore the impact of HPV status on these two common human cancer types. These analysis and visualization tools are intended specifically as a resource for those working in the field of HPV dependent cancers and should not require any significant computational or bioinformatics expertise. The THInCR suite consists of 5 different tools, which allow the exploration of differential mRNA/miRNA expression, gene loci methylation, overall patient survival, and changes in immune landscape features as a function of HPV status and viral mRNA expression in primary human CESC and HNSC.
Standalone Version: Please download the portable version at https://github.com/msaland/THInCR-Suite .
Source Data Resources
Level 3 miRNA and mRNA expression data from the TCGA HNSC and CESC cohorts was downloaded from the Broad Genome Data Analysis Center’s Firehose server Link .
Level 3 Infinium HumanMethylation450 BeadChip array datasets for the TCGA HNSC and CESC cohorts were sourced from the Broad Genome Data Analysis Centers Firehose server Link .
The TCGA HNSC and CESC overall survival (OS) datasets were sourced from Liu et al, Cell 2018 (An Integrated TCGA Pan-Cancer Clinical Data Resource to Drive High-Quality Survival Outcome Analytics) DOI: 10.1016/j.cell.2018.02.052 .
The TCGA HNSC and CESC immune landscape feature datasets were sourced from Thorsson et al, Immunity 2018 (The Immune Landscape of Cancer) DOI: 10.1016/j.immuni.2018.03.023 .
HPV16/33/35 viral mRNA expression data were sourced from Ren et al, Oncogene 2020 (HPV E2, E4, E5 drive alternative carcinogenic pathways in HPV positive cancers) DOI: 10.1038/s41388-020-01431-8 .
Citing THInCR: Salnikov M, Gameiro SF, Zeng PYF, Barrett JW, Nichols AC, Mymryk JS. 2022. The HPV Induced Cancer Resource (THInCR): a Suite of Tools for Investigating HPV-Dependent Human Carcinogenesis. mSphere. 7(4): e0031722.
Manuscript: Link
Contact: contact.thincr@gmail.com
