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Developmental Coexpression (AtGenExpress + ATTED-II promoter motif) Full

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Developmental Microarray Expression Data (AtGenExpress) of plant developmental tissues, combined with CEG coexpression analysis regulatory (7mer) motif calculations (ATTED-II). We took the median of triplicate measurements from AtGenExpress, then sorted the developmental series into plant organs (Flower, Leaf, Root, Stem, Fruit & Seeds), with one category for seedlings (8 days old or less) and another for whole plants (older than 8 days). Gene Loci without expression data or motif data were removed from this database.

References (for ATTED-II):
http://www.ncbi.nlm.nih.gov/pubmed/17130150
References (for AtGenExpress)
http://www.ncbi.nlm.nih.gov/pubmed/15806101


Descriptions for each data table:
AtGenExpress_ATTED_Flowering
This collection of Gene Expression Properties are associated with flowering tissues.
AtGenExpress_ATTED_Fruit_Seeds
This collection of Gene Expression Properties are associated with fruit and seed tissues.
AtGenExpress_ATTED_Leaf
This collection of Gene Expression Properties are associated with leaf tissues.
AtGenExpress_ATTED_Root
This collection of Gene Expression Properties are associated with root tissues.
AtGenExpress_ATTED_Seedling
This collection of Gene Expression Properties are associated with seedling tissues.
AtGenExpress_ATTED_Stem
This collection of Gene Expression Properties are associated with stem tissues.
AtGenExpress_ATTED_Whole_Plant
This collection of Gene Expression Properties are associated with whole plant body parts.
Heptamer_elements A list of the 7mer sequence motifs from ATTED-II. This table lists each 7mer along with the calculated CEG value and the position from the TSS of the maximum CEG value.
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69

value

useful
3
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#LINK
#lang en
#attribution_name GenoCon
#attribution_url http://atted.jp/browsing/browsing_cis_cis.html
#license http://creativecommons.org/publicdomain/zero/1.0/deed.ja
#file_name Heptamer_elements
#download_from http://linkdata.org/work/rdf1s328i
#namespace cis http://atted.jp/data/cis/
#property motif_sequence maxCEG Appropriateposition(± 40 bp) PLACEcorrespondence AssociatedFunction PredictedTF(|r| > 0.5)
#object_type_xsd string float integer integer integer integer
#property_context Assertion Assertion Assertion Assertion Assertion Assertion
cis:AAAACCC.html AAAACCC 0.092 41 4 10
cis:AAAAGTC.html AAAAGTC 0.078 170 1 35
cis:AAAATAT.html AAAATAT 0.07 118 2 8
cis:AAACCCT.html AAACCCT 0.143 20 2 7 11
cis:AAACGCG.html AAACGCG 0.074 149 25
cis:AAACGTG.html AAACGTG 0.066 95 4
cis:AAAGCCC.html AAAGCCC 0.068 78 1 4 8
cis:AAAGTCA.html AAAGTCA 0.076 184 1 36
cis:AAATATC.html AAATATC 0.145 77 1 9
cis:AACACGT.html AACACGT 0.074 94 1 19
cis:AACAGCA.html AACAGCA 0.061 4 3
cis:AACCCTA.html AACCCTA 0.135 20 2 8 10
cis:AACCGAC.html AACCGAC 0.075 26 3 7
cis:AACCGCG.html AACCGCG 0.085 85 34
cis:AACCGTG.html AACCGTG 0.069 113 10
cis:AACCTTC.html AACCTTC 0.067 35 4
cis:AACGCGC.html AACGCGC 0.06 96 20
cis:AACGCGT.html AACGCGT 0.102 127 1 28
cis:AACGTGT.html AACGTGT 0.072 90 6 20
cis:AAGATAA.html AAGATAA 0.061 41 2 23
cis:AAGATAT.html AAGATAT 0.067 50 1 6
cis:AAGCCCA.html AAGCCCA 0.097 84 1 6 9
cis:AAGCGCG.html AAGCGCG 0.067 73 6
cis:AAGGCCC.html AAGGCCC 0.081 84 5 11
cis:AAGTCAA.html AAGTCAA 0.078 125 30
cis:AATAATT.html AATAATT 0.069 112 5 20
cis:AATATCT.html AATATCT 0.136 80 1 9
cis:AATCCCA.html AATCCCA 0.062 8 22
cis:AATGGGC.html AATGGGC 0.09 88 1 3 9
cis:ACACGTG.html ACACGTG 0.109 62 6 12
cis:ACACGTT.html ACACGTT 0.063 33 1 12
cis:ACAGCTG.html ACAGCTG 0.074 144 3
cis:ACATGCA.html ACATGCA 0.06 41 1 15
cis:ACCCCAC.html ACCCCAC 0.062 72 21
cis:ACCCGCG.html ACCCGCG 0.079 9
cis:ACCCTAA.html ACCCTAA 0.106 29 1 6 10
cis:ACCCTAG.html ACCCTAG 0.087 20 4 12
cis:ACCGACA.html ACCGACA 0.071 81 5 1
cis:ACCGACT.html ACCGACT 0.073 43 3 6
cis:ACCGCGT.html ACCGCGT 0.104 98 35
cis:ACCGTGT.html ACCGTGT 0.072 144 7
cis:ACCTACC.html ACCTACC 0.068 29 7
cis:ACCTTAT.html ACCTTAT 0.064 60 23
cis:ACCTTCC.html ACCTTCC 0.064 79 31
cis:ACGCGCT.html ACGCGCT 0.09 111 26
cis:ACGCGGA.html ACGCGGA 0.07 116 1 3 14
cis:ACGCGGT.html ACGCGGT 0.093 141 29
cis:ACGCGTA.html ACGCGTA 0.103 74 27
cis:ACGCGTC.html ACGCGTC 0.072 90 29
cis:ACGCGTT.html ACGCGTT 0.105 96 36
cis:ACGTGGC.html ACGTGGC 0.093 104 23 2 4
cis:ACGTGTA.html ACGTGTA 0.061 82 3 18
cis:ACGTGTC.html ACGTGTC 0.113 84 10 16
cis:ACTCCGC.html ACTCCGC 0.079 117 3
cis:ACTCCTG.html ACTCCTG 0.063 56 9
cis:ACTTCCT.html ACTTCCT 0.063 96 24
cis:ACTTTGA.html ACTTTGA 0.063 92 1 12
cis:AGACACG.html AGACACG 0.072 112 1 16
cis:AGATAAG.html AGATAAG 0.085 38 3 30
cis:AGATATT.html AGATATT 0.105 28 2 9
cis:AGCCACA.html AGCCACA 0.061 53 1 31
cis:AGCCCAA.html AGCCCAA 0.072 76 1 3 10
cis:AGCCCAT.html AGCCCAT 0.087 92 6 8
cis:AGCCGCC.html AGCCGCC 0.064 123 4 6
cis:AGCTGTT.html AGCTGTT 0.068 127 23
cis:AGGCCCA.html AGGCCCA 0.111 86 6 10
cis:AGGGTTT.html AGGGTTT 0.099 33 6 9
cis:AGTCAAC.html AGTCAAC 0.07 80 1 15
cis:ATAAATA.html ATAAATA 0.088 17 5 5
cis:ATACGCG.html ATACGCG 0.06 39 26
cis:ATATAAA.html ATATAAA 0.087 2 2 4
cis:ATATATA.html ATATATA 0.103 26 1 15
cis:ATATCTA.html ATATCTA 0.078 89 8
cis:ATATCTT.html ATATCTT 0.074 79 7
cis:ATCCACA.html ATCCACA 0.062 53 29
cis:ATCTTAT.html ATCTTAT 0.068 23 1 25
cis:ATGCATG.html ATGCATG 0.079 56 2 1
cis:ATGGGCC.html ATGGGCC 0.086 87 3 4 10
cis:ATGGGCT.html ATGGGCT 0.083 100 1 3 10
cis:ATGTCGG.html ATGTCGG 0.074 111 6
cis:ATTGGGC.html ATTGGGC 0.093 99 5 10
cis:CAACCTC.html CAACCTC 0.064 12
cis:CAAGCGC.html CAAGCGC 0.068 23 1
cis:CACACGT.html CACACGT 0.065 70 2 7
cis:CACCGAC.html CACCGAC 0.067 198 3 1
cis:CACGCGG.html CACGCGG 0.068 40 1 23
cis:CACGCGT.html CACGCGT 0.066 74 13
cis:CACGTAC.html CACGTAC 0.062 191 4 1
cis:CACGTGG.html CACGTGG 0.093 112 16 2 5
* Row count is limited to 100.