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Computational Platform for analysis of Small RNA deep Sequencing data CPSS

Alternative name: CPSS1 | CPSS2

Provides a comprehensive integrated pipeline for analyzing small RNA deep sequencing data. CPSS delivers analysis report from ncRNA quantification to miRNA target prediction and annotation of single and multiple datasets. The webserver supports more than 40 species. Each detailed result pages include a search function to find specific terms or values. For Gene Ontology (GO), pathway and protein domain analysis, users can optimize parameters and rerun analysis at each detailed result page.

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CPSS classification

  • Animals
  • Plants

CPSS specifications

Interface:
Web user interface
Input data:
A sample which maximum size is 50MB.
Programming languages:
Perl, PHP, R
Computer skills:
Basic
Stability:
Stable
Restrictions to use:
None
Input format:
FASTA,TAR.GZ
Database management system:
MySQL
Version:
2.0
Maintained:
Yes

CPSS distribution

CPSS support

Maintainers

  • Qinghua Shi <>
  • Yuanwei Zhang <>

Additional information

Version 1: http://mcg.ustc.edu.cn/sdap1/cpss/index.html http://114.214.166.79/cpss2.0/help.html

Credits

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Publications

Institution(s)

Hefei National Laboratory for Physical Sciences at Microscale and School of Life Sciences, University of Science and Technology of China, Hefei, China; School of Information Science and Technology, University of Science and Technology of China, Hefei, China

Funding source(s)

Supported by the National Key Research and Developmental Program of China (2016YFC1000605); the National Basic Research Program of China (2014CB943101); the National Natural Science Foundation of China (31371519, 31501202, 31301227, 31501199, 31571555 and 61571414); the Natural Science Foundation of China - Israel Science Foundation (313111245-1183/14); Major Program of Development Foundation of Hefei Centre for Physical Science and Technology (2014FXZY003); and the Fundamental Research Funds for the Central Universities (WK2070000053 and WK2340000069).

Link to literature

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