/[genomes]/quickload/T_castaneum_Mar_2008/README.txt
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Contents of /quickload/T_castaneum_Mar_2008/README.txt

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Revision 58 - (show annotations)
Thu Sep 27 16:20:02 2018 UTC (3 years, 7 months ago) by aloraine
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Add Tribolium castaneum (March 2008) red flour beetle
1 This README.txt is at ftp://bioinformatics.ksu.edu/pub/BeetleBase/latest/README.txt
2 and describes the contents of the directory at ftp://bioinformatics.ksu.edu/pub/BeetleBase/latest/
3
4 Tribolium castaneum genome sequencing project, version 3.0 (Tcas 3.0) March 2008
5
6 BeetleBase (Tcas 3.0) is at http://beetlebase.org/
7
8 -------------------------------------------------------------------------------
9 The following files are from the Bioinformatics Center, Kansas State University
10 -------------------------------------------------------------------------------
11
12 The directory 'GFF3' contains genome annotations (GFF3 format).
13 The directory 'Sequences' contains sequences and Manually_Curated_CDS_Peptide_mRNA contain the manually curated sequences.
14
15
16 *NOTE : Initailly we had 1-1859 singletons (GG Group) in Tribolium data then NCBI suppressed the 11 and BeetleBase build the Unknown group from that ( 11 suppressed singleton) and publish the paper (used 1848 singletons). After the publication NCBI suppressed 8 more contigs(1840 singletons). But till date BeetleBase using 1848 singleton.
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18
19
20 'Tcas_3.0_BeetleBase3.0.agp' is the modified AGP file used for
21 BeetleBase version 3.0 (Tcas 3.0).
22
23
24 Contact information:
25
26 Prof. Susan (Sue) J. Brown
27 Principal Investigator (PI), BeetleBase
28 Director, Bioinformatics Center and
29 Director, Arthropod Genomics Center
30 Division of Biology
31 Kansas State University, Manhattan KS 66506
32 Phone: (785) 532 3935
33 email: sjbrown at ksu dot edu
34
35
36 -----------------------------------------------------------------------------------------
37 The following files are from the Tribolium sequencing project, Baylor College of Medicine
38 -----------------------------------------------------------------------------------------
39
40 'Tcas_3.0-genome'
41 'Tcas_3.0-genome.qual'
42 'Tcas_3.0_Baylor.agp'
43 'chromosome_anchor_update.table'
44
45 The Tribolium castaneum sequencing project at the Human Genome Sequencing
46 Center, Baylor College of Medicine is at http://www.hgsc.bcm.tmc.edu/projects/tribolium/

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