MicroRNA

Post-analysis categorization
- Literature search
Post-survey categorization
- Features validated in most cases
- Features not validated
Simple lists
Preliminary lists

Tool name

DSAP- Deep sequencing small RNA analysis pipeline

URL

http://dsap.cgu.edu.tw

Important features

Deep-Sequencing small RNA analysis pipeline (DSAP) is useful in interpretational studies of deep sequencing small RNA data sets from solexa sequencing platform.

Citations

Huang PJ, Liu YC, Lee CC, Lin WC, Gan RR, Lyu PC, Tang P. DSAP: deep-sequencing small RNA analysis pipeline. Nucleic Acids Res. 2010 Jul;38(Web Server issue):W385-91. Epub 2010 May 16. PubMed PMID: 20478825; PubMed Central PMCID: PMC2896168.

Year of publication

2010

Rank by usage frequency

100

Comments

Function

EXPERIMENTAL data analysis, BROAD SCOPE RESOURCES: miscellanous, http://dsap.cgu.edu.tw, Deep-Sequencing small RNA analysis pipeline (DSAP) is useful in interpretational studies of deep sequencing small RNA data sets from solexa sequencing platform., Huang PJ- Liu YC- Lee CC- Lin WC- Gan RR- Lyu PC- Tang P. DSAP: deep-sequencing small RNA analysis pipeline. Nucleic Acids Res. 2010 Jul;38(Web Server issue):W385-91. Epub 2010 May 16. PubMed PMID: 20478825; PubMed Central PMCID: PMC2896168. , 2010, 100, Online, I. QUERY OR INPUT DATA: 1. DSAP permits a sequence tag file under 300Mb. 2. Parameters: choose species- omit adaptor sequences- omit poly-A- T- C- G- use test dataset. 3. Comparative miRNAomics is another tool where the user can 1. paste own microRNA expression profile in the required file format from different experiment methods such as stem-loop real-time PCR- microarray or SOLiD sequencing in the text field or 2. enter job identifiers provided by DSAP to allow the microRNA comparison function. II. OUTPUT DATA: details on the DSAP analysis workflow such as job status- clustering- matching of non coding RNA- microRNA- comparative study of microRNA and job overview. III. ADDITIONAL INFORMATION: 1. DSAP also can be used in microRNA comparative expression profile studies for up to 5 data sets. 2. According to the authors claim- DSAP's processing rate is very quick; it is estimated to complete a single task of two million sequence tags in 15 minutes. , Analyze microRNAs related to rat.