TNBCtype pipeline
TNBCtype specifications
Information
| Unique identifier | OMICS_19773 |
|---|---|
| Name | TNBCtype |
| Alternative name | Triple-Negative Breast Cancer type |
| Interface | Web user interface |
| Restrictions to use | None |
| Input data | Gene expression values. |
| Input format | CSV |
| Computer skills | Basic |
| Stability | Stable |
| Maintained | Yes |
Maintainers
- person_outline Jennifer Pietenpol <>
- person_outline Xi Chen <>
Additional information
http://cbc.mc.vanderbilt.edu/tnbc/help.php
Publication for Triple-Negative Breast Cancer type
2012 Cancer Inform
PMCID: 3412597
PMID: 22872785
DOI: 10.4137/CIN.S9983
TNBCtype IN pipeline
2016
PMCID: 4991491
PMID: 26980748
DOI: 10.18632/oncotarget.8014
[…] mode with all other parameters set to default values. the resulting gene-by-sample matrix consisted of 12 er+ luminal b and 10 btnbc samples. tnbc subtypes listed in table s11b were predicted using tnbctype [53] with fpkm expression values as input. differentially expressed genes (|log2fc| > 1.5 and fdr < 0.05) were identified with deseq2 [54] using the same protocol applied to the pdx […]
TNBCtype institution(s)
Department of Biostatistics, Vanderbilt University, Nashville, TN, USA; Center for Quantitative Sciences, Vanderbilt University, Nashville, TN, USA; Department of Biochemistry, Vanderbilt University, Nashville, TN, USA; Vanderbilt Institute of Chemical Biology, Vanderbilt University, Nashville, TN, USA; Vanderbilt-Ingram Cancer Center, Vanderbilt University, Nashville, TN, USA
TNBCtype funding source(s)
Supported by NIH grants CA068485; CA95131 (Specialized Program of Research Excellence in Breast Cancer); CA148375; CA105436; CA070856; CA009385; American Cancer Society Grant #PF-10-226-01-TBG; and Komen Foundation grant SAC110030.2.0
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