CTLPScanner specifications
- Unique identifier:
- OMICS_11873
- Restrictions to use:
- None
- Output data:
- The output interface presents intuitive graphical representations of detected chromosome pulverization region, as well as detailed results in table format. CTLPScanner also provides additional information for associated genes in chromothripsis region to help identify the potential candidates involved in tumorigenesis.
- Computer skills:
- Basic
- Maintained:
- Yes
- Interface:
- Web user interface
- Input data:
- The screening of chromothripsis event is carried out based on DNA copy number segmentation data, which can be generated by aCGH or SNP array platforms. The minimum required data contents include the sample name, chromosome number, start and stop positions of each segment and log normalized signal intensity. The input file should be tab-delimited with an optional first line identifying the columns. All required data fields can be generated by using CBS algorithm.
- Programming languages:
- Javascript, Perl, PHP, R
- Stability:
- Stable
CTLPScanner specifications
- Unique identifier:
- OMICS_11873
- Interface:
- Command line interface
- Operating system:
- Unix/Linux, Mac OS, Windows
- Computer skills:
- Advanced
- Maintained:
- Yes
- Software type:
- Package/Module
- Restrictions to use:
- None
- Programming languages:
- R
- Stability:
- Stable
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CTLPScanner support
Maintainer
- Haoyang Cai <>
- Haoyang Cai <>
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Publications
-
(Yang et al., 2016)
CTLPScanner: a web server for chromothripsis-like pattern detection.
Nucleic Acids Res.
PMID: 27185889 DOI: 10.1093/nar/gkw434 -
(Cai et al., 2014)
Chromothripsis-like patterns are recurring but heterogeneously distributed features in a survey of 22,347 cancer genome screens.
BMC Genomics.
PMID: 24476156 DOI: 10.1186/1471-2164-15-82
Institution(s)
Center of Growth, Metabolism, and Aging, Key Laboratory of Bio-Resources and Eco-Environment, College of Life Sciences, Sichuan University, Chengdu, Sichuan, China; State Key Laboratory of Biotherapy, West China Hospital, Sichuan University, and Collaborative Innovation Center of Biotherapy, Chengdu, Sichuan, China; Department of Gastrointestinal Surgery, West China Hospital, Sichuan University, Chengdu, Sichuan, China
Funding source(s)
National Natural Science Foundation of China [31571314, 81402496]
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