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Cbrowse specifications

Information


Unique identifier OMICS_04048
Name Cbrowse
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages C++, Perl
License GNU General Public License version 3.0, GNU General Public License version 2.0
Computer skills Advanced
Version 1.0
Stability Stable
Maintained Yes

Versioning


No version available

Maintainers


  • person_outline Chun Liang
  • person_outline Guoli Ji

Information


Unique identifier OMICS_04048
Name Cbrowse
Interface Web user interface
Restrictions to use None
Programming languages C++, Javascript, Perl
Database management system MySQL
Computer skills Basic
Version 1.0
Stability Stable
Maintained Yes

Maintainers


  • person_outline Chun Liang
  • person_outline Guoli Ji

Publication for Cbrowse

Cbrowse citations

 (3)
library_books

Assembly, Assessment, and Availability of De novo Generated Eukaryotic Transcriptomes

2016
Front Genet
PMCID: 4707302
PMID: 26793234
DOI: 10.3389/fgene.2015.00361

[…] nscriptome data (Lesur et al., ).Apart from more complete packages such as afterParty and RNAbrowse, there are limited tools with web interfaces that are available for analysis of transcriptome data. CBrowse (Li et al., ) is a web browser which takes assembled contig sequences and BAM/SAM alignment files as input, and enables the user to identify polymorphisms and view the contigs in the web inter […]

library_books

afterParty: turning raw transcriptomes into permanent resources

2013
BMC Bioinformatics
PMCID: 3856601
PMID: 24093729
DOI: 10.1186/1471-2105-14-301

[…] mbly process, built for clustering Sanger sequence data, that is not suitable for next-generation sequence data, and the analysis portion of the tool requires considerable technical expertise to use. CBrowse [] is a recently-published web application that provides an interface to pre-assembled contig and read mapping data. Its focus is on identifying polymorphisms, repeats and sequencing errors ra […]

library_books

SNP Detection in mRNA in Living Cells Using Allele Specific FRET Probes

2013
PLoS One
PMCID: 3767744
PMID: 24039756
DOI: 10.1371/journal.pone.0072389

[…] man ovary adenocarcinoma NAR (NCI/Adr-Res) cells were provided by M. Liskowitz (Weizmann Institute of Science, Israel) and are also part of the NCI 60 cell lines http://cancer.sanger.ac.uk/cell_lines/cbrowse/nci . Culturing was carried in full RPMI 1640 (Biological Industries, Israel) growth media. All growth media contained 10% fetal calf serum, Penicillin (100 U/ml), Streptomycin (0.1 mg/ml), Ny […]

Citations

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Cbrowse institution(s)
Department of Automation, Xiamen University, Xiamen, Fujian, China; Department of Botany, Miami University, Oxford, OH, USA; Department of Computer Science and Software Engineering, Miami University, Oxford, OH, USA; State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Science, Beijing, China
Cbrowse funding source(s)
Supported by the NIH-AREA (1R15GM94732-1 A1), the Key Project of Chinese National Programs for Fundamental Research and Development (973 Program: No. 2009CB118902), the National Natural Science Foundation of China (No. 61174161), the Specialized Research Fund for the Doctoral Program of Higher Education of China (No. 20090121110022), and the Fundamental Research Funds for the Central Universities in China (Xiamen University: No. 2011121047, No. 201112G018 and No. CXB2011035).

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