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cooperl [Wed, 23 Oct 2024 20:28:13 +0000 (20:28 +0000)]
Fixed a couple of the MiRNAs
svn path=/; revision=1108
cooperl [Wed, 23 Oct 2024 17:19:19 +0000 (17:19 +0000)]
Adding parul new test file
svn path=/; revision=1107
cooperl [Wed, 23 Oct 2024 16:38:59 +0000 (16:38 +0000)]
Removing the old test file
svn path=/; revision=1106
cooperl [Wed, 23 Oct 2024 15:05:54 +0000 (15:05 +0000)]
Removed miRNA duplicaed in new file
svn path=/; revision=1105
elserj [Tue, 22 Oct 2024 22:35:51 +0000 (22:35 +0000)]
Add correctly spelled file
svn path=/; revision=1104
elserj [Tue, 22 Oct 2024 22:35:20 +0000 (22:35 +0000)]
Remove badly named file
svn path=/; revision=1103
cooperl [Tue, 22 Oct 2024 21:09:52 +0000 (21:09 +0000)]
Adding file of Gramene Micro RNA genes
svn path=/; revision=1102
cooperl [Mon, 21 Oct 2024 20:02:09 +0000 (20:02 +0000)]
Removed all the miRNA annotations
This line, and those below, will be ignored--
M po-associations/po_growth_gene_oryza_poc.assoc
svn path=/; revision=1101
cooperl [Mon, 21 Oct 2024 18:31:22 +0000 (18:31 +0000)]
Fixed extra tab and added header row
svn path=/; revision=1100
cooperl [Fri, 18 Oct 2024 22:30:22 +0000 (22:30 +0000)]
removing test file
svn path=/; revision=1099
cooperl [Fri, 18 Oct 2024 22:29:28 +0000 (22:29 +0000)]
Added clusters 3, 8 annotations to main file
svn path=/; revision=1098
cooperl [Fri, 18 Oct 2024 22:27:22 +0000 (22:27 +0000)]
Fixed gene id
svn path=/; revision=1097
cooperl [Fri, 18 Oct 2024 18:53:38 +0000 (18:53 +0000)]
Replaced PMID with DOI
svn path=/; revision=1096
cooperl [Fri, 18 Oct 2024 18:39:05 +0000 (18:39 +0000)]
Fixed miRNA name
svn path=/; revision=1095
cooperl [Fri, 18 Oct 2024 18:20:10 +0000 (18:20 +0000)]
Fixed name of miRNA
svn path=/; revision=1094
cooperl [Fri, 18 Oct 2024 17:56:02 +0000 (17:56 +0000)]
Fixed object type from mRNA to gene
svn path=/; revision=1093
cooperl [Thu, 17 Oct 2024 18:42:42 +0000 (18:42 +0000)]
Removed cluster 3 annotations
svn path=/; revision=1092
cooperl [Thu, 17 Oct 2024 17:33:50 +0000 (17:33 +0000)]
Fixed missing DB ids
svn path=/; revision=1091
cooperl [Thu, 17 Oct 2024 16:52:19 +0000 (16:52 +0000)]
Adding test file of RAP-DB annotations for exodermis, PO:
0005772
svn path=/; revision=1090
cooperl [Sun, 13 Oct 2024 20:18:29 +0000 (20:18 +0000)]
Removed extra header line, partial line
svn path=/; revision=1089
cooperl [Fri, 11 Oct 2024 21:10:07 +0000 (21:10 +0000)]
Fixed gene name
svn path=/; revision=1088
cooperl [Fri, 11 Oct 2024 21:06:47 +0000 (21:06 +0000)]
Fixed dates
svn path=/; revision=1087
cooperl [Fri, 11 Oct 2024 20:42:13 +0000 (20:42 +0000)]
Fixing taxon ids
svn path=/; revision=1086
cooperl [Fri, 11 Oct 2024 19:06:09 +0000 (19:06 +0000)]
Removing - wrong name
svn path=/; revision=1085
cooperl [Fri, 11 Oct 2024 19:05:31 +0000 (19:05 +0000)]
Fixing filename
svn path=/; revision=1084
cooperl [Fri, 11 Oct 2024 19:00:00 +0000 (19:00 +0000)]
Adding Parul's test file for Cluster 5,11,18,16
svn path=/; revision=1083
cooperl [Fri, 11 Oct 2024 16:35:36 +0000 (16:35 +0000)]
Fixed typo
svn path=/; revision=1082
cooperl [Wed, 9 Oct 2024 23:01:11 +0000 (23:01 +0000)]
Fixed partial line
svn path=/; revision=1081
cooperl [Wed, 9 Oct 2024 21:23:18 +0000 (21:23 +0000)]
removed extra line
svn path=/; revision=1080
cooperl [Wed, 9 Oct 2024 21:15:29 +0000 (21:15 +0000)]
Fixing more miRNA links and names
svn path=/; revision=1079
cooperl [Tue, 8 Oct 2024 21:34:54 +0000 (21:34 +0000)]
Fixing a few assigned by entries
svn path=/; revision=1078
cooperl [Tue, 8 Oct 2024 18:23:57 +0000 (18:23 +0000)]
Fixed extra line
svn path=/; revision=1077
cooperl [Tue, 8 Oct 2024 17:40:25 +0000 (17:40 +0000)]
A few more fixes
svn path=/; revision=1076
cooperl [Tue, 8 Oct 2024 17:31:02 +0000 (17:31 +0000)]
Fixing a few of the rice gene annotations
svn path=/; revision=1075
cooperl [Mon, 7 Oct 2024 22:10:42 +0000 (22:10 +0000)]
Adding annotations for Cluster 3
svn path=/; revision=1074
cooperl [Thu, 3 Oct 2024 22:26:27 +0000 (22:26 +0000)]
Fixed gene name Os10g0535800
svn path=/; revision=1073
cooperl [Thu, 3 Oct 2024 22:15:36 +0000 (22:15 +0000)]
Fixed name on Os01g0248900
svn path=/; revision=1072
cooperl [Tue, 24 Sep 2024 16:08:35 +0000 (16:08 +0000)]
Adding gene lists for Cluster 9
svn path=/; revision=1071
cooperl [Fri, 20 Sep 2024 20:30:02 +0000 (20:30 +0000)]
Adding Cluster 4 annotations
svn path=/; revision=1070
cooperl [Fri, 20 Sep 2024 18:02:43 +0000 (18:02 +0000)]
Replaced obsoleted GO terms
svn path=/; revision=1069
cooperl [Thu, 19 Sep 2024 19:24:31 +0000 (19:24 +0000)]
Adding DOI for the reference
svn path=/; revision=1068
cooperl [Thu, 19 Sep 2024 19:19:24 +0000 (19:19 +0000)]
Fixed line endings
svn path=/; revision=1067
cooperl [Thu, 19 Sep 2024 19:06:34 +0000 (19:06 +0000)]
Fixed links to miRNAs on Gramene, fixed object types and updated to gaf-version: 2.1
svn path=/; revision=1066
cooperl [Wed, 18 Sep 2024 17:21:43 +0000 (17:21 +0000)]
Fixing a couple minor issues
svn path=/; revision=1065
cooperl [Mon, 9 Sep 2024 23:21:41 +0000 (23:21 +0000)]
Adding rest of Cluster 1 annotations
svn path=/; revision=1064
cooperl [Mon, 9 Sep 2024 18:57:48 +0000 (18:57 +0000)]
Adding additional annotations
svn path=/; revision=1063
cooperl [Sat, 7 Sep 2024 21:23:33 +0000 (21:23 +0000)]
Adding additional lines
svn path=/; revision=1062
cooperl [Sat, 7 Sep 2024 20:58:42 +0000 (20:58 +0000)]
Adding more annotation lines
svn path=/; revision=1061
cooperl [Sat, 7 Sep 2024 20:56:19 +0000 (20:56 +0000)]
Fixed 'assigned by'
svn path=/; revision=1060
cooperl [Fri, 6 Sep 2024 22:44:06 +0000 (22:44 +0000)]
Added missing line ending
svn path=/; revision=1059
cooperl [Fri, 6 Sep 2024 22:39:45 +0000 (22:39 +0000)]
Adding new file of annotations from Zhng et al, 2021.
svn path=/; revision=1058
elserj [Wed, 14 Aug 2024 23:45:56 +0000 (23:45 +0000)]
Update Sorghum QTLs
svn path=/; revision=1057
cooperl [Thu, 9 May 2024 21:01:13 +0000 (21:01 +0000)]
Fixed a couple more NDF QTLs
svn path=/; revision=1056
cooperl [Thu, 9 May 2024 17:36:09 +0000 (17:36 +0000)]
Updated mappings to new NDF term TO:
0001148
svn path=/; revision=1055
elserj [Wed, 24 Apr 2024 22:26:34 +0000 (22:26 +0000)]
Update TAIR annotations to latest. Downloaded 12/3/23 and associations
newer then 5/1/23 were removed to comply with TAIR 1 year embargo
svn path=/; revision=1054
cooperl [Sat, 16 Mar 2024 19:02:56 +0000 (19:02 +0000)]
Fixed genes with wrong symbol, removed duplicates
svn path=/; revision=1053
cooperl [Fri, 15 Mar 2024 19:43:09 +0000 (19:43 +0000)]
Fixing gene names
svn path=/; revision=1052
cooperl [Fri, 15 Mar 2024 18:09:53 +0000 (18:09 +0000)]
Fixed DOIs
svn path=/; revision=1051
cooperl [Thu, 14 Mar 2024 17:22:03 +0000 (17:22 +0000)]
Fixing curator: col 15
svn path=/; revision=1050
elserj [Wed, 13 Mar 2024 23:16:44 +0000 (23:16 +0000)]
Remove extra tab
svn path=/; revision=1049
cooperl [Wed, 13 Mar 2024 22:36:19 +0000 (22:36 +0000)]
Adding Gramene gene annotations
svn path=/; revision=1048
cooperl [Thu, 7 Mar 2024 18:37:30 +0000 (18:37 +0000)]
Adding folder for PSO annotations
svn path=/; revision=1047
elserj [Fri, 2 Feb 2024 23:18:24 +0000 (23:18 +0000)]
Missing "!" in header line
svn path=/; revision=1046
elserj [Wed, 3 Jan 2024 22:07:34 +0000 (22:07 +0000)]
Change NCBITaxon: to taxon: to be consistent with other files
svn path=/; revision=1045
cooperl [Tue, 19 Dec 2023 23:43:05 +0000 (23:43 +0000)]
Updating mappings to fungal disease QTLs
svn path=/; revision=1044
cooperl [Thu, 30 Nov 2023 22:11:37 +0000 (22:11 +0000)]
Moved Phytophora QTLs to new Oomycete term TO:
0001144
svn path=/; revision=1043
cooperl [Tue, 14 Nov 2023 20:18:13 +0000 (20:18 +0000)]
Updated mappings to antioxidant QTLs with new antioxidant activity trait TO:
0001143
svn path=/; revision=1042
elserj [Thu, 26 Oct 2023 18:52:25 +0000 (18:52 +0000)]
Remove duplicate lines
svn path=/; revision=1041
cooperl [Wed, 4 Oct 2023 19:44:36 +0000 (19:44 +0000)]
Updating files formats to gaf 2.1
svn path=/; revision=1040
cooperl [Wed, 4 Oct 2023 19:35:05 +0000 (19:35 +0000)]
Updated file formats to gaf 2.1
svn path=/; revision=1039
cooperl [Fri, 1 Sep 2023 21:03:39 +0000 (21:03 +0000)]
Moving a couple more files into test folder
svn path=/; revision=1038
cooperl [Fri, 1 Sep 2023 20:52:34 +0000 (20:52 +0000)]
moving test file
svn path=/; revision=1037
cooperl [Tue, 22 Aug 2023 18:02:08 +0000 (18:02 +0000)]
Adding another test file to the folder
svn path=/; revision=1036
cooperl [Tue, 22 Aug 2023 17:43:32 +0000 (17:43 +0000)]
Moving the SoyBase test file into new test folder
svn path=/; revision=1035
cooperl [Tue, 22 Aug 2023 17:40:46 +0000 (17:40 +0000)]
Creating folde for the SoyBase test files
svn path=/; revision=1034
elserj [Thu, 20 Jul 2023 20:53:54 +0000 (20:53 +0000)]
Replace new batch of obsolete GO terms
svn path=/; revision=1033
elserj [Wed, 19 Jul 2023 21:36:39 +0000 (21:36 +0000)]
Add OsXXgYYYYY synonyms
svn path=/; revision=1032
cooperl [Wed, 5 Jul 2023 18:20:19 +0000 (18:20 +0000)]
Updated mappings to 21 QTL for Pubescence density from leaf trichome density TO:
0006066 to TO:
0001139 - leaflet pubescence.
-This line, and those below, will be ignored--
M to-associations/to_qtl_glycine_SoyBase.assoc
svn path=/; revision=1031
elserj [Wed, 14 Jun 2023 18:51:51 +0000 (18:51 +0000)]
Fix Genesys db_id and dbxref to link out properly
svn path=/; revision=1030
cooperl [Thu, 8 Jun 2023 19:25:25 +0000 (19:25 +0000)]
Changed mapping to leaflet Chl content to new TO term TO:
0001140
Fixed a few minor edits in Zea mays qtl file
svn path=/; revision=1029
elserj [Fri, 26 May 2023 14:44:36 +0000 (14:44 +0000)]
Fix wrong aspect. GO terms were changed because of obsoletes in previous
commits, but the aspect may not have matched anymore.
svn path=/; revision=1028
elserj [Thu, 25 May 2023 23:38:57 +0000 (23:38 +0000)]
Fix extra tabs
svn path=/; revision=1027
cooperl [Wed, 24 May 2023 20:39:38 +0000 (20:39 +0000)]
Fixed some the references to be consistent with the PECO file.
svn path=/; revision=1026
elserj [Wed, 24 May 2023 18:48:43 +0000 (18:48 +0000)]
New batch of fixed obsoletes
svn path=/; revision=1025
cooperl [Tue, 23 May 2023 18:11:58 +0000 (18:11 +0000)]
Fixed mappings to grain phosphorus content and updated date.
svn path=/; revision=1024
elserj [Fri, 19 May 2023 22:55:10 +0000 (22:55 +0000)]
Add missing header line
svn path=/; revision=1023
cooperl [Fri, 19 May 2023 21:24:34 +0000 (21:24 +0000)]
Adding individual files for the Gramene TO QTL annotations
svn path=/; revision=1022
cooperl [Fri, 19 May 2023 21:07:23 +0000 (21:07 +0000)]
emoving this file, since I split into individual files.
svn path=/; revision=1021
cooperl [Fri, 19 May 2023 21:05:33 +0000 (21:05 +0000)]
Split file into separate taxa to match peco files
svn path=/; revision=1020
elserj [Fri, 19 May 2023 15:21:45 +0000 (15:21 +0000)]
Fix new batch of obsolete terms. If term had a replacement, changed to
that. If not, was commented out.
svn path=/; revision=1019
elserj [Thu, 30 Mar 2023 22:55:40 +0000 (22:55 +0000)]
Fix spelling of Arabidopsis in filename
svn path=/; revision=1018
elserj [Thu, 30 Mar 2023 22:38:47 +0000 (22:38 +0000)]
Fix extra space in with/from column
svn path=/; revision=1017
elserj [Thu, 30 Mar 2023 22:32:06 +0000 (22:32 +0000)]
Fix with/from column (8) for MaizeGDB files
svn path=/; revision=1016
elserj [Thu, 30 Mar 2023 22:14:33 +0000 (22:14 +0000)]
Add Cornus florida (dogwood) iprscan and ortholog files
svn path=/; revision=1015
elserj [Thu, 30 Mar 2023 21:32:00 +0000 (21:32 +0000)]
Updated GO ortholog assoc files based on new file from TAIR
svn path=/; revision=1014
elserj [Thu, 30 Mar 2023 20:23:01 +0000 (20:23 +0000)]
Updated GO Arabidopsis annotations from TAIR
svn path=/; revision=1013
elserj [Thu, 30 Mar 2023 20:18:07 +0000 (20:18 +0000)]
Fix missing aspect for some terms
svn path=/; revision=1012
elserj [Thu, 30 Mar 2023 15:56:35 +0000 (15:56 +0000)]
Fix all obsolete terms. If term had a single replacement, changed to
that. If not, line was commented out.
svn path=/; revision=1011
cooperl [Wed, 29 Mar 2023 19:34:05 +0000 (19:34 +0000)]
Fixing object names
svn path=/; revision=1010
cooperl [Mon, 27 Mar 2023 22:02:27 +0000 (22:02 +0000)]
Replaced obsolete GO:
0010260 with GO:
0090693
svn path=/; revision=1009
projects / associations / .git / log