Difference between revisions of "Fabry:Mapping point mutations/Journal"
Rackersederj (talk | contribs) m |
Rackersederj (talk | contribs) (→SNPdbe) |
||
| Line 10: | Line 10: | ||
== SNPdbe == |
== SNPdbe == |
||
| + | The textfile containing all informations gathered in SNPdbe was downloaded after searching for the gene identifier "NP_000160" in the organism "human" ([http://www.rostlab.org/services/snpdbe/dosearch.php?id=name&val=NP_000160&organism2=human&organism1= see]). The textfile was parsed with the perl scripts [https://www.dropbox.com/s/qp7gr2nxpj91yr9/readSNPdbe.pl.txt readSNPdbe.pl] and [https://www.dropbox.com/s/ygrds0su20ojafi/SNPdbe2table.pl.txt SNPdbe2table.pl] and vizualised with the R script [https://www.dropbox.com/s/4vw4elo84ywkk3m/Hotspots_SNPdbe.R.txt Hotspots_SNPdbe.R]. For now, a SNP was considered disease causing if there was a disease listed, if it was a "N/A" it was assigned "non-disease". |
||
| + | |||
| + | perl [https://www.dropbox.com/s/qp7gr2nxpj91yr9/readSNPdbe.pl.txt readSNPdbe.pl] |
||
| + | perl [https://www.dropbox.com/s/ygrds0su20ojafi/SNPdbe2table.pl.txt SNPdbe2table.pl] > SNPdbe.wiki |
||
| + | R CMD BATCH [https://www.dropbox.com/s/4vw4elo84ywkk3m/Hotspots_SNPdbe.R.txt Hotspots_SNPdbe.R] |
||
== Mapping == |
== Mapping == |
||
Revision as of 08:43, 10 June 2012
Fabry Disease » Mapping point mutations » Journal
OMIM
In this database we searched for the gene GLA and downloaded the Table View table of the Allelic Variants, which can be found in the Table of Contents. This table was parsed with the perl scripts readOMIM.pl and Omim2table.pl, which created all the output we needed for creation of the tables and statistics.
perl readOMIM.pl perl Omim2table.pl > omim.wiki
SNPedia
SNPdbe
The textfile containing all informations gathered in SNPdbe was downloaded after searching for the gene identifier "NP_000160" in the organism "human" (see). The textfile was parsed with the perl scripts readSNPdbe.pl and SNPdbe2table.pl and vizualised with the R script Hotspots_SNPdbe.R. For now, a SNP was considered disease causing if there was a disease listed, if it was a "N/A" it was assigned "non-disease".
perl readSNPdbe.pl perl SNPdbe2table.pl > SNPdbe.wiki R CMD BATCH Hotspots_SNPdbe.R
