wFleaBase | BLAST | BioMart | GBrowse Maps | Genomics | Help
[?]

Daphnia pulex Genes 2010

This is a new, improved gene prediction/evidence set for Daphnia pulex, in a beta release, for those interested. Your comments to improve these are desired.
-- Don Gilbert, gilbertd at indiana edu.
      Name                                           Last modified       Size  Description

[DIR] Parent Directory 12-Jan-2010 15:19 - [   ] daphnia_genes2010_beta3.aa.gz 22-Apr-2010 20:43 9.1M [   ] daphnia_genes2010_beta3.annotation.txt.gz 23-Dec-2010 13:01 2.3M [   ] daphnia_genes2010_beta3.cds.gz 28-Jan-2011 12:44 15.3M [   ] daphnia_genes2010_beta3.gff.gz 23-Apr-2010 22:24 8.0M [TXT] daphnia_genes2010_beta3.readme.txt 28-Jan-2011 13:14 10k [   ] daphnia_genes2010_beta3.tr.gz 27-Jan-2011 12:36 22.7M [   ] daphnia_genes2010_beta3_alttr.gff.gz 22-Apr-2010 21:35 130k [TXT] daphnia_genes2010_cuticle.chitbindrr1genes.txt 08-Jul-2010 19:01 49k [TXT] daphnia_genes2010_cuticle.txt 08-Jul-2010 18:38 17k [TXT] daphnia_genes2010_header.html 24-Apr-2010 14:42 1k [TXT] daphnia_genes2010_human_unique.txt 06-Jul-2010 22:07 27k [DIR] daphnia_genes2010_pix/ 24-Apr-2010 15:08 - [TXT] dpx-augustus-predict0802.txt 17-Dec-2008 23:39 4k [DIR] older-predictions/ 22-Apr-2010 18:25 -


daphnia_genes2010_beta3  : Daphnia pulex Gene Set 2.0 beta3, 2010 April
   see daphnia_genes2010_beta3.readme.txt

daphnia_genes2010_tilex/  : Tile expression analysis for Genes 2.0

older-predictions/
dpulex_aug26_mix14_beta2 : Daphnia pulex Gene Set 2.0 beta2, 2010 March

dpulex_augustus19.gff,aa : protein coding gene predictions/calls derived
from Augustus+ for Daphnia pulex using (a) model trained on Daphnia pulex
EST/cDNA (PASA), (b) Transcriptionally active regions (TARs) from genome tile
array.  TAR data guided individual predictions.  Some will be outside tar regions,
some matching. The mRNA attribute pct_evd= provides percentage of gene supported
by TAR data.

dpulex-augmap19-nojgigene.esum  : for augmap genes outside of prior predictions,
	homology check with blast NCBI-Nr protein matches
dpulex-tar-all.gff.gz           : TAR combined data (3 groups: fem,male,metal, 3 levels)
dpulex_augustus19.aa.gz         : predicted proteins
dpulex_augustus19.gff.gz        : predicted features

Don Gilbert, 2008 .. 2010