| author | Don Pellegrino <don@drexel.edu> | 2009-07-23 18:10:48 (GMT) |
|---|---|---|
| committer | Don Pellegrino <don@drexel.edu> | 2009-07-23 18:10:48 (GMT) |
| commit | 07724238172a740659f56dd616c624e2c3fb718c (patch) (side-by-side diff) | |
| tree | 2de83a57fb97bf5ae4392c4ac621feafde545646 | |
| parent | 6ab124777a77615b396ee37163ae1bf20d4b43cc (diff) | |
| download | exp005-07724238172a740659f56dd616c624e2c3fb718c.zip exp005-07724238172a740659f56dd616c624e2c3fb718c.tar.gz exp005-07724238172a740659f56dd616c624e2c3fb718c.tar.bz2 | |
A sample analysis process to explore the use of the map.
| -rw-r--r-- | test/explore1.txt | 59 |
1 files changed, 59 insertions, 0 deletions
diff --git a/test/explore1.txt b/test/explore1.txt new file mode 100644 index 0000000..500debe --- a/dev/null +++ b/test/explore1.txt @@ -0,0 +1,59 @@ +By analyzing the map we can see the that 2004 Avian flu is very +similar to the 1957 pandemic within one of the clusters. Seven +proteins from the 1957 pandemic surround a single protein from the +2004 avian flu. Although the strains of H2N2 and H9N2 are different +this particular and specific similarity is identifiable at a lower +level of detail. Such a relationship might be difficult to discover +by performing only organism to organism comparisons. + +Selection +--------- +db2 => select * from vis_selection; + +GI +-------------------------------------------------- +187937439 +188504364 +189230513 +194352176 +194352214 +194352233 +194352252 +208342867 + + 8 record(s) selected. + +Summary +------- +> summary (d); + GI GBSEQ_LOCUS GBSEQ_ACCESSION_VERSION GBSEQ_UPDATE_DATE + 187937439:1 ACD37779:1 ACD37779.1:1 01-JUN-2008:1 + 188504364:1 ACD56299:1 ACD56299.1:1 02-OCT-2008:1 + 189230513:1 ACD85239:1 ACD85239.1:1 16-MAY-2008:1 + 194352176:1 ACF54485:1 ACF54485.1:1 19-JAN-2009:1 + 194352214:1 ACF54507:1 ACF54507.1:1 21-JUL-2008:4 + 194352233:1 ACF54518:1 ACF54518.1:1 + (Other) :2 (Other) :2 (Other) :2 + GBSEQ_CREATE_DATE ORGANISM + 01-JUN-2008:1 Influenza A virus (A/Ann Arbor/23/1957(H2N2)) :1 + 02-OCT-2008:1 Influenza A virus (A/chicken/Korea/S21/2004(H9N2)):1 + 16-MAY-2008:1 Influenza A virus (A/Guiyang/1/1957(H2N2)) :1 + 19-JAN-2009:1 Influenza A virus (A/Singapore/1/1957(H2N2)) :1 + 21-JUL-2008:4 Influenza A virus (A/Singapore/1-MA12A/1957(H2N2)):1 + Influenza A virus (A/Singapore/1-MA12B/1957(H2N2)):1 + (Other) :2 + STRAIN SEROTYPE N_CITES + A/Ann Arbor/23/1957 :1 H2N2:7 Min. :2 + A/chicken/Korea/S21/2004:1 H9N2:1 1st Qu.:2 + A/Guiyang/1/1957 :1 Median :2 + A/Singapore/1/1957 :1 Mean :2 + A/Singapore/1-MA12A/1957:1 3rd Qu.:2 + A/Singapore/1-MA12B/1957:1 Max. :2 + (Other) :2 + +Based on this finding it might be worthwhile to investigate the +similarities bewteen the single protein from a chicken in Korea in +2004 relative to the Singapore, Guiyang and Ann Arbor proteins from +1957. One interesting observation is the geographic outlier of Ann +Arbor versus the others in Asia. + |
