t2-web 0.1.5 → 0.1.6

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Files changed (110) hide show
  1. data/CHANGES +5 -1
  2. data/README +1 -1
  3. data/Rakefile +1 -1
  4. data/bin/t2_webapp.rb +47 -17
  5. data/public/t2web/tmp/outputs/043341ee-a7ac-451d-9cb0-f8cd9ac67bb2/UniProtID +185 -0
  6. data/public/t2web/tmp/outputs/043341ee-a7ac-451d-9cb0-f8cd9ac67bb2/ValidatedProtein +10 -0
  7. data/public/t2web/tmp/outputs/17a9e3a7-01e8-4906-bb4e-17afc495c3f2/UniProtID +185 -0
  8. data/public/t2web/tmp/outputs/17a9e3a7-01e8-4906-bb4e-17afc495c3f2/ValidatedProtein +10 -0
  9. data/public/t2web/tmp/outputs/17f3c889-709c-4e88-9143-af6977d198bb/Pathway +1 -0
  10. data/public/t2web/tmp/outputs/17f3c889-709c-4e88-9143-af6977d198bb/clean_image +0 -0
  11. data/public/t2web/tmp/outputs/17f3c889-709c-4e88-9143-af6977d198bb/geneList +184 -0
  12. data/public/t2web/tmp/outputs/17f3c889-709c-4e88-9143-af6977d198bb/image +0 -0
  13. data/public/t2web/tmp/outputs/17f3c889-709c-4e88-9143-af6977d198bb/url +1 -0
  14. data/public/t2web/tmp/outputs/1dbfe89e-527b-4bbd-9aff-e2acb0250480/Pathway +2 -0
  15. data/public/t2web/tmp/outputs/1dbfe89e-527b-4bbd-9aff-e2acb0250480/geneList +184 -0
  16. data/public/t2web/tmp/outputs/1dbfe89e-527b-4bbd-9aff-e2acb0250480/image +0 -0
  17. data/public/t2web/tmp/outputs/1dbfe89e-527b-4bbd-9aff-e2acb0250480/url +1 -0
  18. data/public/t2web/tmp/outputs/364650ca-f195-4bcf-bd28-f6f94a08bc2f/SummedSimilarity +2 -0
  19. data/public/t2web/tmp/outputs/364650ca-f195-4bcf-bd28-f6f94a08bc2f/TopContributingConcepts +20 -0
  20. data/public/t2web/tmp/outputs/364650ca-f195-4bcf-bd28-f6f94a08bc2f/TopMatchingConcepts +2 -0
  21. data/public/t2web/tmp/outputs/364650ca-f195-4bcf-bd28-f6f94a08bc2f/contributionTable_xml +2 -0
  22. data/public/t2web/tmp/outputs/43840a00-d632-4750-b567-bd1aaa28e792/url +1 -0
  23. data/public/t2web/tmp/outputs/443c5bd6-bd49-4ab0-bdf5-5922d4277ec1/UniProtID +205 -0
  24. data/public/t2web/tmp/outputs/443c5bd6-bd49-4ab0-bdf5-5922d4277ec1/ValidatedProtein +30 -0
  25. data/public/t2web/tmp/outputs/44aa6d10-3c28-417f-8251-98d83b6b1546/Pathway +1 -0
  26. data/public/t2web/tmp/outputs/44aa6d10-3c28-417f-8251-98d83b6b1546/geneList +184 -0
  27. data/public/t2web/tmp/outputs/44aa6d10-3c28-417f-8251-98d83b6b1546/image +0 -0
  28. data/public/t2web/tmp/outputs/44aa6d10-3c28-417f-8251-98d83b6b1546/url +1 -0
  29. data/public/t2web/tmp/outputs/4f58dc77-0a4a-4b32-abe2-546e2e83d265/Pathway +1 -0
  30. data/public/t2web/tmp/outputs/4f58dc77-0a4a-4b32-abe2-546e2e83d265/geneList +184 -0
  31. data/public/t2web/tmp/outputs/4f58dc77-0a4a-4b32-abe2-546e2e83d265/image +0 -0
  32. data/public/t2web/tmp/outputs/4f58dc77-0a4a-4b32-abe2-546e2e83d265/url +1 -0
  33. data/public/t2web/tmp/outputs/645e0cd3-b15c-419a-9aaf-cc252f698007/Pathway +1 -0
  34. data/public/t2web/tmp/outputs/645e0cd3-b15c-419a-9aaf-cc252f698007/clean_image +0 -0
  35. data/public/t2web/tmp/outputs/645e0cd3-b15c-419a-9aaf-cc252f698007/geneList +184 -0
  36. data/public/t2web/tmp/outputs/645e0cd3-b15c-419a-9aaf-cc252f698007/image +0 -0
  37. data/public/t2web/tmp/outputs/645e0cd3-b15c-419a-9aaf-cc252f698007/url +1 -0
  38. data/public/t2web/tmp/outputs/700368a4-c2e0-4d18-8b5f-d39ce70127a2/SummedSimilarity +2 -0
  39. data/public/t2web/tmp/outputs/700368a4-c2e0-4d18-8b5f-d39ce70127a2/TopContributingConcepts +20 -0
  40. data/public/t2web/tmp/outputs/700368a4-c2e0-4d18-8b5f-d39ce70127a2/TopMatchingConcepts +2 -0
  41. data/public/t2web/tmp/outputs/700368a4-c2e0-4d18-8b5f-d39ce70127a2/contributionTable_xml +2 -0
  42. data/public/t2web/tmp/outputs/7f2ec0e9-f943-4da0-8d6b-dc1a6fd51c2b/UniProtID +185 -0
  43. data/public/t2web/tmp/outputs/7f2ec0e9-f943-4da0-8d6b-dc1a6fd51c2b/ValidatedProtein +10 -0
  44. data/public/t2web/tmp/outputs/8309f5e9-775a-47aa-aed5-6fdec98cafa2/SummedSimilarity +2 -0
  45. data/public/t2web/tmp/outputs/8309f5e9-775a-47aa-aed5-6fdec98cafa2/TopContributingConcepts +20 -0
  46. data/public/t2web/tmp/outputs/8309f5e9-775a-47aa-aed5-6fdec98cafa2/TopMatchingConcepts +2 -0
  47. data/public/t2web/tmp/outputs/8309f5e9-775a-47aa-aed5-6fdec98cafa2/contributionTable_xml +2 -0
  48. data/public/t2web/tmp/outputs/84bbdc26-d551-4f76-bebd-584129370c98/UniProtID +185 -0
  49. data/public/t2web/tmp/outputs/84bbdc26-d551-4f76-bebd-584129370c98/ValidatedProtein +10 -0
  50. data/public/t2web/tmp/outputs/86d5297d-edd4-4660-9b52-836fc123a576/Pathway +1 -0
  51. data/public/t2web/tmp/outputs/86d5297d-edd4-4660-9b52-836fc123a576/geneList +184 -0
  52. data/public/t2web/tmp/outputs/86d5297d-edd4-4660-9b52-836fc123a576/image +0 -0
  53. data/public/t2web/tmp/outputs/86d5297d-edd4-4660-9b52-836fc123a576/url +1 -0
  54. data/public/t2web/tmp/outputs/88c82fc7-b319-4cde-9ca3-2aae4ce822ae/Pathway +1 -0
  55. data/public/t2web/tmp/outputs/88c82fc7-b319-4cde-9ca3-2aae4ce822ae/geneList +184 -0
  56. data/public/t2web/tmp/outputs/88c82fc7-b319-4cde-9ca3-2aae4ce822ae/image +0 -0
  57. data/public/t2web/tmp/outputs/88c82fc7-b319-4cde-9ca3-2aae4ce822ae/url +1 -0
  58. data/public/t2web/tmp/outputs/98992f59-65d0-4f07-a35d-c9cdc5a8ce82/Pathway +2 -0
  59. data/public/t2web/tmp/outputs/98992f59-65d0-4f07-a35d-c9cdc5a8ce82/geneList +184 -0
  60. data/public/t2web/tmp/outputs/98992f59-65d0-4f07-a35d-c9cdc5a8ce82/image +0 -0
  61. data/public/t2web/tmp/outputs/98992f59-65d0-4f07-a35d-c9cdc5a8ce82/url +1 -0
  62. data/public/t2web/tmp/outputs/9a5a9628-6a69-4f38-be3d-33d80945cefc/UniProtID +185 -0
  63. data/public/t2web/tmp/outputs/9a5a9628-6a69-4f38-be3d-33d80945cefc/ValidatedProtein +10 -0
  64. data/public/t2web/tmp/outputs/9da46c38-0410-4d98-be9a-c0afee33c571/SummedSimilarity +2 -0
  65. data/public/t2web/tmp/outputs/9da46c38-0410-4d98-be9a-c0afee33c571/TopContributingConcepts +20 -0
  66. data/public/t2web/tmp/outputs/9da46c38-0410-4d98-be9a-c0afee33c571/TopMatchingConcepts +2 -0
  67. data/public/t2web/tmp/outputs/9da46c38-0410-4d98-be9a-c0afee33c571/contributionTable_xml +2 -0
  68. data/public/t2web/tmp/outputs/a03f1c45-c2e0-40a6-bbe1-9cdf34e15469/Pathway +1 -0
  69. data/public/t2web/tmp/outputs/a03f1c45-c2e0-40a6-bbe1-9cdf34e15469/geneList +184 -0
  70. data/public/t2web/tmp/outputs/a03f1c45-c2e0-40a6-bbe1-9cdf34e15469/image +0 -0
  71. data/public/t2web/tmp/outputs/a03f1c45-c2e0-40a6-bbe1-9cdf34e15469/url +1 -0
  72. data/public/t2web/tmp/outputs/b2863ad9-7a44-48f8-923f-ef2adc0f4524/Pathway +1 -0
  73. data/public/t2web/tmp/outputs/b2863ad9-7a44-48f8-923f-ef2adc0f4524/geneList +184 -0
  74. data/public/t2web/tmp/outputs/b2863ad9-7a44-48f8-923f-ef2adc0f4524/image +0 -0
  75. data/public/t2web/tmp/outputs/b2863ad9-7a44-48f8-923f-ef2adc0f4524/url +1 -0
  76. data/public/t2web/tmp/outputs/c0881a86-9c9f-4a38-84cd-0a97ff6813a2/Pathway +1 -0
  77. data/public/t2web/tmp/outputs/c0881a86-9c9f-4a38-84cd-0a97ff6813a2/geneList +184 -0
  78. data/public/t2web/tmp/outputs/c0881a86-9c9f-4a38-84cd-0a97ff6813a2/image +0 -0
  79. data/public/t2web/tmp/outputs/c0881a86-9c9f-4a38-84cd-0a97ff6813a2/url +1 -0
  80. data/public/t2web/tmp/outputs/c3e2661d-bb95-43fc-ba7e-a619469c5f4b/UniProtID +185 -0
  81. data/public/t2web/tmp/outputs/c3e2661d-bb95-43fc-ba7e-a619469c5f4b/ValidatedProtein +10 -0
  82. data/public/t2web/tmp/outputs/c73cde64-c753-4c3a-9356-59286e2274ce/SummedSimilarity +2 -0
  83. data/public/t2web/tmp/outputs/c73cde64-c753-4c3a-9356-59286e2274ce/TopContributingConcepts +20 -0
  84. data/public/t2web/tmp/outputs/c73cde64-c753-4c3a-9356-59286e2274ce/TopMatchingConcepts +2 -0
  85. data/public/t2web/tmp/outputs/c73cde64-c753-4c3a-9356-59286e2274ce/contributionTable_xml +2 -0
  86. data/public/t2web/tmp/outputs/d4cae575-6952-474d-88d7-2e1f55c6222b/Pathway +1 -0
  87. data/public/t2web/tmp/outputs/d4cae575-6952-474d-88d7-2e1f55c6222b/geneList +184 -0
  88. data/public/t2web/tmp/outputs/d4cae575-6952-474d-88d7-2e1f55c6222b/gene_description +184 -0
  89. data/public/t2web/tmp/outputs/d681c2d6-9e60-407c-a26c-a0aa76c2655a/Pathway +1 -0
  90. data/public/t2web/tmp/outputs/d681c2d6-9e60-407c-a26c-a0aa76c2655a/geneList +184 -0
  91. data/public/t2web/tmp/outputs/d681c2d6-9e60-407c-a26c-a0aa76c2655a/gene_description +184 -0
  92. data/public/t2web/tmp/outputs/d77e3b35-2a94-4893-83a6-e8aafacd538d/UniProtID +205 -0
  93. data/public/t2web/tmp/outputs/d77e3b35-2a94-4893-83a6-e8aafacd538d/ValidatedProtein +30 -0
  94. data/public/t2web/tmp/outputs/dc51d833-8d87-4e89-8343-46bca8898345/UniProtID +185 -0
  95. data/public/t2web/tmp/outputs/dc51d833-8d87-4e89-8343-46bca8898345/ValidatedProtein +10 -0
  96. data/public/t2web/tmp/outputs/dcbec202-78b9-4a0f-ad2e-b1373190e21a/UniProtID +185 -0
  97. data/public/t2web/tmp/outputs/dcbec202-78b9-4a0f-ad2e-b1373190e21a/ValidatedProtein +10 -0
  98. data/public/t2web/tmp/outputs/de9c8875-2049-4fb4-a60b-9b8d3e9c97cc/UniProtID +185 -0
  99. data/public/t2web/tmp/outputs/de9c8875-2049-4fb4-a60b-9b8d3e9c97cc/ValidatedProtein +10 -0
  100. data/public/t2web/tmp/outputs/e0cda387-e8a5-45a5-a0da-6877464eed4a/SummedSimilarity +2 -0
  101. data/public/t2web/tmp/outputs/e0cda387-e8a5-45a5-a0da-6877464eed4a/TopContributingConcepts +20 -0
  102. data/public/t2web/tmp/outputs/e0cda387-e8a5-45a5-a0da-6877464eed4a/TopMatchingConcepts +2 -0
  103. data/public/t2web/tmp/outputs/e0cda387-e8a5-45a5-a0da-6877464eed4a/contributionTable_xml +2 -0
  104. data/public/t2web/tmp/outputs/ecc62b90-7989-4165-addd-0b53581a9627/Pathway +1 -0
  105. data/public/t2web/tmp/outputs/ecc62b90-7989-4165-addd-0b53581a9627/clean_image +0 -0
  106. data/public/t2web/tmp/outputs/ecc62b90-7989-4165-addd-0b53581a9627/geneList +184 -0
  107. data/public/t2web/tmp/outputs/ecc62b90-7989-4165-addd-0b53581a9627/image +0 -0
  108. data/public/t2web/tmp/outputs/ecc62b90-7989-4165-addd-0b53581a9627/url +1 -0
  109. data/views/results.haml +2 -2
  110. metadata +108 -4
data/public/t2web/tmp/outputs/b2863ad9-7a44-48f8-923f-ef2adc0f4524/url ADDED
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+ <b>http://soap.genome.jp/tmp/mark_pathway_www_api.13348668345925/hsa05016.png</b>
data/public/t2web/tmp/outputs/c0881a86-9c9f-4a38-84cd-0a97ff6813a2/Pathway ADDED
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+ path:hsa05016 Huntington's disease - Homo sapiens (human)
data/public/t2web/tmp/outputs/c0881a86-9c9f-4a38-84cd-0a97ff6813a2/geneList ADDED
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data/public/t2web/tmp/outputs/c0881a86-9c9f-4a38-84cd-0a97ff6813a2/url ADDED
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+ http://soap.genome.jp/tmp/mark_pathway_www_api.133467416516745/hsa05016.png
data/public/t2web/tmp/outputs/c3e2661d-bb95-43fc-ba7e-a619469c5f4b/UniProtID ADDED
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168
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173
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data/public/t2web/tmp/outputs/c3e2661d-bb95-43fc-ba7e-a619469c5f4b/ValidatedProtein ADDED
@@ -0,0 +1,10 @@
1
+ <b>GnT-III</b>
2
+ GnT-III
3
+ GnT-III
4
+ GnT-III
5
+ <b>gamma-actin</b>
6
+ <b>APP</b>
7
+ APP
8
+ APP
9
+ <b>UPS</b>
10
+ <b>TFE</b>
data/public/t2web/tmp/outputs/c73cde64-c753-4c3a-9356-59286e2274ce/SummedSimilarity ADDED
@@ -0,0 +1,2 @@
1
+ 1.7257954402415606E-4
2
+ 2.982841744031976E-7
data/public/t2web/tmp/outputs/c73cde64-c753-4c3a-9356-59286e2274ce/TopContributingConcepts ADDED
@@ -0,0 +1,20 @@
1
+ EZH2
2
+ HDAC1
3
+ histone
4
+ Hdac1l
5
+ Deacetylase
6
+ Transcriptional Repression
7
+ epigene
8
+ chromatin immunoprecipitation
9
+ Repression
10
+ histone deacetylase inhibitor
11
+ candidate disease gene
12
+ all nervous tissue
13
+ Nerve Tissue
14
+ Genes
15
+ Aggressive behavior
16
+ Cell membrane
17
+ carrier of disorder
18
+ lysine
19
+ Lysine
20
+ Methylation
data/public/t2web/tmp/outputs/c73cde64-c753-4c3a-9356-59286e2274ce/TopMatchingConcepts ADDED
@@ -0,0 +1,2 @@
1
+ <http://rdf.biosemantics.org/owl/concept#3092985/>
2
+ <http://rdf.biosemantics.org/owl/concept#3099696/>
data/public/t2web/tmp/outputs/c73cde64-c753-4c3a-9356-59286e2274ce/contributionTable_xml ADDED
@@ -0,0 +1,2 @@
1
+ <ConceptContributionTable><ConceptContribution><conceptName>EZH2</conceptName><contribution>31.88125789165497</contribution><conceptId>3091515</conceptId></ConceptContribution><ConceptContribution><conceptName>HDAC1</conceptName><contribution>22.398044168949127</contribution><conceptId>3092985</conceptId></ConceptContribution><ConceptContribution><conceptName>histone</conceptName><contribution>15.102960169315338</contribution><conceptId>4278518</conceptId></ConceptContribution><ConceptContribution><conceptName>Hdac1l</conceptName><contribution>13.64096999168396</contribution><conceptId>3070448</conceptId></ConceptContribution><ConceptContribution><conceptName>Deacetylase</conceptName><contribution>3.7955906242132187</contribution><conceptId>1333261</conceptId></ConceptContribution><ConceptContribution><conceptName>Transcriptional Repression</conceptName><contribution>1.364685595035553</contribution><conceptId>920533</conceptId></ConceptContribution><ConceptContribution><conceptName>epigene</conceptName><contribution>1.0359483771026134</contribution><conceptId>2900273</conceptId></ConceptContribution><ConceptContribution><conceptName>chromatin immunoprecipitation</conceptName><contribution>0.7878270000219345</contribution><conceptId>1328856</conceptId></ConceptContribution><ConceptContribution><conceptName>Repression</conceptName><contribution>0.7402509450912476</contribution><conceptId>35143</conceptId></ConceptContribution><ConceptContribution><conceptName>histone deacetylase inhibitor</conceptName><contribution>0.6155987735837698</contribution><conceptId>1512474</conceptId></ConceptContribution></ConceptContributionTable>
2
+ <ConceptContributionTable><ConceptContribution><conceptName>candidate disease gene</conceptName><contribution>36.36130690574646</contribution><conceptId>1332838</conceptId></ConceptContribution><ConceptContribution><conceptName>all nervous tissue</conceptName><contribution>5.341833457350731</contribution><conceptId>1762608</conceptId></ConceptContribution><ConceptContribution><conceptName>Nerve Tissue</conceptName><contribution>5.339629203081131</contribution><conceptId>27757</conceptId></ConceptContribution><ConceptContribution><conceptName>Genes</conceptName><contribution>5.2357688546180725</contribution><conceptId>17337</conceptId></ConceptContribution><ConceptContribution><conceptName>Aggressive behavior</conceptName><contribution>3.674016520380974</contribution><conceptId>1807</conceptId></ConceptContribution><ConceptContribution><conceptName>Cell membrane</conceptName><contribution>2.3985113948583603</contribution><conceptId>7603</conceptId></ConceptContribution><ConceptContribution><conceptName>carrier of disorder</conceptName><contribution>2.014324814081192</contribution><conceptId>560175</conceptId></ConceptContribution><ConceptContribution><conceptName>lysine</conceptName><contribution>1.8032535910606384</contribution><conceptId>4275268</conceptId></ConceptContribution><ConceptContribution><conceptName>Lysine</conceptName><contribution>1.8017882481217384</contribution><conceptId>4005689</conceptId></ConceptContribution><ConceptContribution><conceptName>Methylation</conceptName><contribution>1.6273731365799904</contribution><conceptId>25723</conceptId></ConceptContribution></ConceptContributionTable>
data/public/t2web/tmp/outputs/d4cae575-6952-474d-88d7-2e1f55c6222b/Pathway ADDED
@@ -0,0 +1 @@
1
+ path:hsa05016 Huntington's disease - Homo sapiens (human)
data/public/t2web/tmp/outputs/d4cae575-6952-474d-88d7-2e1f55c6222b/geneList ADDED
@@ -0,0 +1,184 @@
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