[Obo-phenotype-commits] obo/ontology/phenotype human_disease.obo, 1.351, 1.352 mosquito_insecticide

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Update of /cvsroot/obo/obo/ontology/phenotype
In directory vz-cvs-4.sog:/tmp/cvs-serv9969/phenotype

Modified Files:
	human_disease.obo mosquito_insecticide_resistance.obo 
	worm_phenotype.obo 
Log Message:
Automated file update

Index: human_disease.obo
===================================================================
RCS file: /cvsroot/obo/obo/ontology/phenotype/human_disease.obo,v
retrieving revision 1.351
retrieving revision 1.352
diff -C2 -d -r1.351 -r1.352
*** human_disease.obo	29 Apr 2011 08:07:32 -0000	1.351
--- human_disease.obo	30 Apr 2011 07:02:54 -0000	1.352
***************
*** 1,4 ****
  format-version: 1.2
! date: 28:04:2011 16:35
  auto-generated-by: OBO-Edit 2.1-beta6
  subsetdef: GOLD "GOLD"
--- 1,4 ----
  format-version: 1.2
! date: 29:04:2011 16:17
  auto-generated-by: OBO-Edit 2.1-beta6
  subsetdef: GOLD "GOLD"
***************
*** 8,12 ****
  subsetdef: tick-borne_infectious_disease "tick-borne infectious disease"
  subsetdef: zoonotic_infectious_disease "zoonotic infectious disease"
! default-namespace: disease_ontology
  remark: This is an alpha version and is only for experimental implementation. This work is licensed under a Creative Commons Attribution 3.0 Unported License http://creativecommons.org/licenses/by/3.0/.

--- 8,12 ----
  subsetdef: tick-borne_infectious_disease "tick-borne infectious disease"
  subsetdef: zoonotic_infectious_disease "zoonotic infectious disease"
! synonymtypedef: systematic_synonym "Systematic synonym" EXACT
  remark: This is an alpha version and is only for experimental implementation. This work is licensed under a Creative Commons Attribution 3.0 Unported License http://creativecommons.org/licenses/by/3.0/.

***************
*** 2804,2807 ****
--- 2804,2808 ----
  xref: MSH:D011125
  xref: OMIM:175100
+ xref: OMIM:608456
  is_a: DOID:0050177 ! simple genetic disease

***************
*** 4501,4504 ****
--- 4502,4575 ----

  [Term]
+ id: DOID:0050600
+ name: ABCD syndrome
+ comment: OMIM mapping confirmed by DO. [SN].
+ synonym: "ALBINISM, BLACK LOCK, CELL MIGRATION DISORDER OF THE NEUROCYTES OF THE GUT, AND DEAFNESS" EXACT []
+ xref: OMIM:600501
+ is_a: DOID:0050177 ! simple genetic disease
+ created_by: snadendla
+ creation_date: 2011-04-29T09:39:40Z
+ 
+ [Term]
+ id: DOID:0050601
+ name: ADULT syndrome
+ comment: OMIM mapping confirmed by DO. [SN].
+ synonym: "ACRO-DERMATO-UNGUAL-LACRIMAL-TOOTH SYNDROME" EXACT []
+ xref: OMIM:103285
+ is_a: DOID:0050177 ! simple genetic disease
+ created_by: snadendla
+ creation_date: 2011-04-29T09:46:10Z
+ 
+ [Term]
+ id: DOID:0050602
+ name: triple-A syndrome
+ comment: OMIM mapping confirmed by DO. [SN].
+ synonym: "Achalasia-Addisonianism-Alacrimia syndrome" EXACT []
+ synonym: "Allgrove Syndrome" EXACT []
+ xref: OMIM:231550
+ is_a: DOID:0050177 ! simple genetic disease
+ created_by: snadendla
+ creation_date: 2011-04-29T10:04:36Z
+ 
+ [Term]
+ id: DOID:0050603
+ name: acheiropody
+ comment: OMIM mapping confirmed by DO. [SN].
+ synonym: "Acheiropodia" EXACT []
+ synonym: "Horn-Kolb Syndrome" EXACT []
+ xref: OMIM:200500
+ is_a: DOID:2256 ! osteochondrodysplasia
+ created_by: snadendla
+ creation_date: 2011-04-29T10:14:29Z
+ 
+ [Term]
+ id: DOID:0050604
+ name: acrocapitofemoral dysplasia
+ comment: OMIM mapping confirmed by DO. [SN].
+ xref: OMIM:607778
+ is_a: DOID:2256 ! osteochondrodysplasia
+ created_by: snadendla
+ creation_date: 2011-04-29T10:41:26Z
+ 
+ [Term]
+ id: DOID:0050605
+ name: acrodermatitis enteropathica
+ xref: OMIM:201100
+ is_a: DOID:896 ! inborn errors metal metabolism
+ created_by: snadendla
+ creation_date: 2011-04-29T10:52:10Z
+ 
+ [Term]
+ id: DOID:0050606
+ name: acrokeratosis verruciformis
+ comment: OMIM mapping confirmed by DO. [SN].
+ synonym: "Acrokeratosis verruciformis of Hopf" EXACT []
+ synonym: "Hopf disease" EXACT []
+ xref: OMIM:101900
+ is_a: DOID:161 ! keratosis
+ created_by: snadendla
+ creation_date: 2011-04-29T11:02:32Z
+ 
+ [Term]
  id: DOID:0060000
  name: infective endocarditis
***************
*** 5311,5314 ****
--- 5382,5387 ----
  name: acromesomelic dysplasia, Maroteaux type
  def: "An acromesomelic dysplasia that has_material_basis_in mutation in NPR-B receptor which results_in severe dwarfism, abnormalities of the located_in vertebral column and shortening of middle and distal segments in the located_in limb." [pdf:http\://www.orpha.net/data/patho/GB/uk-Acromesomelic%2805%29.pdf, url:http\://rarediseases.info.nih.gov/GARD/Disease.aspx?PageID=4&diseaseID=507, url:http\://www.ncbi.nlm.nih.gov/omim/602875]
+ comment: OMIM mapping confirmed by DO. [SN].
+ xref: OMIM:602875
  is_a: DOID:0080049 ! acromesomelic dysplasia

***************
*** 5317,5320 ****
--- 5390,5396 ----
  name: acromesomelic dysplasia, Hunter-Thompson type
  def: "An acromesomelic dysplasia that has_material_basis_in mutation in AMDH gene which results_in normal axial skeleton but fused bones in the located_in hand and located_in foot." [pdf:http\://www.orpha.net/data/patho/GB/uk-hunter05.pdf, url:http\://rarediseases.info.nih.gov/GARD/Disease.aspx?diseaseID=506, url:http\://www.ncbi.nlm.nih.gov/omim/201250]
+ comment: OMIM mapping confirmed by DO. [SN].
+ synonym: "acromesomelic dwarfism" EXACT []
+ xref: OMIM:201250
  is_a: DOID:0080049 ! acromesomelic dysplasia

***************
*** 5323,5326 ****
--- 5399,5404 ----
  name: acromesomelic dysplasia, Grebe type
  def: "An acromesomelic dysplasia that has_material_basis_in mutation in CDMP-1 which results_in micromelia, absence of middle and proximal phalanges and some metacarpal and metatarsal bones." [pdf:http\://www.orpha.net/data/patho/Pro/en/AcromesomelicDysplasiaGrebe-FRenPro2010.pdf, url:http\://rarediseases.info.nih.gov/GARD/Condition/1300/Chondrodysplasia_Grebe_type.aspx, url:http\://www.orpha.net/consor/cgi-bin/OC_Exp.php?lng=EN&Expert=2098]
+ synonym: "GREBE CHONDRODYSPLASIA" EXACT []
+ xref: OMIM:200700
  is_a: DOID:0080049 ! acromesomelic dysplasia

***************
*** 5337,5341 ****
--- 5415,5421 ----
  name: achondrogenesis type IA
  def: "An achondrogenesis that results_in abnormal ossification of the located_in vertebral column and located_in spine." [url:http\://emedicine.medscape.com/article/941176-overview, url:http\://en.wikipedia.org/wiki/Achondrogenesis_type_1A, url:http\://www.healthline.com/galecontent/achondrogenesis]
+ comment: OMIM mapping confirmed by DO. [SN].
  synonym: "achondrogenesis Houston-Harris type" EXACT []
+ xref: OMIM:200600
  is_a: DOID:0080043 ! achondrogenesis

***************
*** 5344,5348 ****
--- 5424,5430 ----
  name: achondrogenesis type IB
  def: "An achondrogenesis that has_material_basis_in mutation in the SLC26A2 gene which results_in umbilical or inguinal hernia and a prominent rounded abdomen." [url:http\://en.wikipedia.org/wiki/Achondrogenesis_type_1B, url:http\://ghr.nlm.nih.gov/condition/achondrogenesis, url:http\://www.healthline.com/galecontent/achondrogenesis, url:http\://www.ncbi.nlm.nih.gov/books/NBK1516/]
+ comment: OMIM mapping confirmed by DO. [SN].
  synonym: "achondrogenesis Fraccaro type" EXACT []
+ xref: OMIM:600972
  is_a: DOID:0080043 ! achondrogenesis

***************
*** 5351,5354 ****
--- 5433,5438 ----
  name: achondrogenesis type II
  def: "An achondrogenesis that has_material_basis_in mutations in the COL2A1 gene which results_in underdeveloped lungs, hydrops fetalis,a prominent forehead and abnormal ossification of the located_in vertebral column and located_in pelvis." [url:http\://en.wikipedia.org/wiki/Achondrogenesis_type_2, url:http\://ghr.nlm.nih.gov/condition/achondrogenesis, url:http\://www.healthline.com/galecontent/achondrogenesis]
+ comment: OMIM mapping confirmed by DO. [SN].
+ xref: OMIM:200610
  is_a: DOID:0080043 ! achondrogenesis

***************
*** 45278,45281 ****
--- 45362,45367 ----
  id: DOID:2280
  name: hidradenitis suppurativa
+ comment: OMIM mapping confirmed by DO. [SN].
+ synonym: "Acne inversa, familial" EXACT []
  synonym: "Hidradenitis suppurativa" EXACT [MTHICD9_2006:705.83]
  synonym: "Hidradenitis suppurativa" EXACT [SNOMEDCT_2005_07_31:156417004]
***************
*** 45285,45288 ****
--- 45371,45376 ----
  xref: MSH2010_2010_02_22:D017497
  xref: OMIM:142690
+ xref: OMIM:613736
+ xref: OMIM:613737
  xref: SNOMEDCT_2010_1_31:156417004
  xref: SNOMEDCT_2010_1_31:201204008
***************
*** 61665,61670 ****
  xref: NCI2009_04D:C40408
  xref: UMLS_CUI:C1511322
! is_a: DOID:1625 ! breast adenoma
! is_a: DOID:452 ! mixed salivary gland tumor

  [Term]
--- 61753,61757 ----
  xref: NCI2009_04D:C40408
  xref: UMLS_CUI:C1511322
! is_obsolete: true

  [Term]
***************
*** 65302,65305 ****
--- 65389,65393 ----
  xref: NCI2009_04D:C35691
  xref: NCI2009_04D:C8602
+ xref: OMIM:181030
  xref: SNOMEDCT_2010_1_31:8360001
  xref: UMLS_CUI:C0026277
***************
*** 68251,68276 ****

  [Term]
- id: DOID:4888
- name: scrofula
- subset: gram-positive_bacterial_infectious_disease
- synonym: "king's evil" EXACT []
- xref: MSH2010_2010_02_22:D018601
- xref: UMLS_CUI:C0242830
- is_a: DOID:0050598 ! extrapulmonary tuberculosis
- 
- [Term]
  id: DOID:4889
  name: lymph node tuberculosis
  subset: gram-positive_bacterial_infectious_disease
  synonym: "Lymph Node Tuberculosis" EXACT [NCI2004_11_17:C26896]
  synonym: "Tuberculous adenitis" EXACT [MTHICD9_2006:017.2]
  synonym: "Tuberculous adenitis" EXACT [SNOMEDCT_2005_07_31:186260002]
  synonym: "Tuberculous lymphadenopathy" EXACT [SNOMEDCT_2005_07_31:10893003]
  xref: MSH2010_2010_02_22:D014388
  xref: NCI2009_04D:C26896
  xref: SNOMEDCT_2010_1_31:10893003
  xref: SNOMEDCT_2010_1_31:186260002
  xref: UMLS_CUI:C0041316
! is_obsolete: true

  [Term]
--- 68339,68360 ----

  [Term]
  id: DOID:4889
  name: lymph node tuberculosis
+ alt_id: DOID:4888
  subset: gram-positive_bacterial_infectious_disease
+ synonym: "king's evil" EXACT []
  synonym: "Lymph Node Tuberculosis" EXACT [NCI2004_11_17:C26896]
+ synonym: "scrofula" EXACT []
  synonym: "Tuberculous adenitis" EXACT [MTHICD9_2006:017.2]
  synonym: "Tuberculous adenitis" EXACT [SNOMEDCT_2005_07_31:186260002]
  synonym: "Tuberculous lymphadenopathy" EXACT [SNOMEDCT_2005_07_31:10893003]
  xref: MSH2010_2010_02_22:D014388
+ xref: MSH2010_2010_02_22:D018601
  xref: NCI2009_04D:C26896
  xref: SNOMEDCT_2010_1_31:10893003
  xref: SNOMEDCT_2010_1_31:186260002
  xref: UMLS_CUI:C0041316
! xref: UMLS_CUI:C0242830
! is_a: DOID:0050598 ! extrapulmonary tuberculosis

  [Term]
***************
*** 75901,75905 ****
  xref: OMIM:154400
  xref: UMLS_CUI:C1332140
! is_a: DOID:225 ! syndrome

  [Term]
--- 75985,75989 ----
  xref: OMIM:154400
  xref: UMLS_CUI:C1332140
! is_obsolete: true

  [Term]
***************
*** 81458,81464 ****
  [Term]
  id: DOID:6683
! name: Aarskog syndrome
  def: "A simple genetic disease affects a person's height, muscles, skeleton, genitals, and appearance of the face. Inherited means that it is passed down through families." [url:http\://www.nlm.nih.gov/medlineplus/ency/article/001654.htm]
  comment: OMIM mapping confirmed by DO. [SN].
  synonym: "Aarskog syndrome (disorder)" EXACT [SNOMEDCT_2005_07_31:14921002]
  synonym: "Aarskog syndrome [dup] (disorder)" EXACT [SNOMEDCT_2005_07_31:205809002]
--- 81542,81549 ----
  [Term]
  id: DOID:6683
! name: Aarskog-Scott syndrome
  def: "A simple genetic disease affects a person's height, muscles, skeleton, genitals, and appearance of the face. Inherited means that it is passed down through families." [url:http\://www.nlm.nih.gov/medlineplus/ency/article/001654.htm]
  comment: OMIM mapping confirmed by DO. [SN].
+ synonym: "Aarskog syndrome" EXACT []
  synonym: "Aarskog syndrome (disorder)" EXACT [SNOMEDCT_2005_07_31:14921002]
  synonym: "Aarskog syndrome [dup] (disorder)" EXACT [SNOMEDCT_2005_07_31:205809002]
***************
*** 104043,104046 ****
--- 104128,104135 ----

  [Typedef]
+ id: occurs_with
+ name: occurs_with
+ 
+ [Typedef]
  id: realized_by_supression_with
  name: realized_by_supression_with

Index: worm_phenotype.obo
===================================================================
RCS file: /cvsroot/obo/obo/ontology/phenotype/worm_phenotype.obo,v
retrieving revision 1.166
retrieving revision 1.167
diff -C2 -d -r1.166 -r1.167
*** worm_phenotype.obo	29 Apr 2011 08:07:33 -0000	1.166
--- worm_phenotype.obo	30 Apr 2011 07:02:59 -0000	1.167
***************
*** 1,4 ****
  format-version: 1.2
! date: 28:04:2011 14:52
  saved-by: garys
  auto-generated-by: OBO-Edit 1.002
--- 1,4 ----
  format-version: 1.2
! date: 29:04:2011 14:53
  saved-by: garys
  auto-generated-by: OBO-Edit 1.002
***************
*** 5296,5300 ****
  synonym: "arrest in meiosis I" RELATED []
  synonym: "Emo" BROAD three_letter_name []
! is_a: WBPhenotype:0000977 ! somatic gonad morphology variant

--- 5296,5300 ----
  synonym: "arrest in meiosis I" RELATED []
  synonym: "Emo" BROAD three_letter_name []
! is_a: WBPhenotype:0001260 ! oocyte morphology variant

***************
*** 13344,13348 ****
  def: "An increased number of oocytes are retained in the gonad without becoming endomitotic, compared to control. " [WB:WBPaper00006281, WB:WBPaper00030855]
  synonym: "oocyte number increased" RELATED []
! is_a: WBPhenotype:0000977 ! somatic gonad morphology variant

--- 13344,13348 ----
  def: "An increased number of oocytes are retained in the gonad without becoming endomitotic, compared to control. " [WB:WBPaper00006281, WB:WBPaper00030855]
  synonym: "oocyte number increased" RELATED []
! is_a: WBPhenotype:0001260 ! oocyte morphology variant

***************
*** 15329,15333 ****
  name: oocytes stacked
  def: "Oocytes are found one on top of the other in the dorsal to ventral orientation in the gonad." [WB:WBPerson557]
! is_a: WBPhenotype:0000977 ! somatic gonad morphology variant

--- 15329,15333 ----
  name: oocytes stacked
  def: "Oocytes are found one on top of the other in the dorsal to ventral orientation in the gonad." [WB:WBPerson557]
! is_a: WBPhenotype:0001260 ! oocyte morphology variant

***************
*** 15336,15340 ****
  name: oocytes disorganized
  def: "Oocytes are no longer arranged in the gonad in the same manner as control animals." [WB:WBPerson557]
! is_a: WBPhenotype:0000977 ! somatic gonad morphology variant

--- 15336,15340 ----
  name: oocytes disorganized
  def: "Oocytes are no longer arranged in the gonad in the same manner as control animals." [WB:WBPerson557]
! is_a: WBPhenotype:0001260 ! oocyte morphology variant

***************
*** 15474,15478 ****
  name: oocyte number decreased
  def: "A decreased number of oocytes are retained in the gonad compared to control." [WB:WBPerson557]
! is_a: WBPhenotype:0000977 ! somatic gonad morphology variant

--- 15474,15478 ----
  name: oocyte number decreased
  def: "A decreased number of oocytes are retained in the gonad compared to control." [WB:WBPerson557]
! is_a: WBPhenotype:0001260 ! oocyte morphology variant

***************
*** 15506,15509 ****
--- 15506,15546 ----

  [Term]
+ id: WBPhenotype:0001949
+ name: diakinesis region organization variant
+ def: "Animals exhibit variations from control animals in the organization of the germ cell nuclei in the gonad that are in the diakinesis stage. In C. elegans the diakinesis region occurs in the proximal gonad arm and is preceded by the diplotene region. In the diakinesis region oocytes arrest until oocyte maturation occurs." [WB:WBPerson557]
+ is_a: WBPhenotype:0001355 ! gonad morphology variant
+ is_a: WBPhenotype:0001948 ! diakinesis progression during oogenesis variant
+ 
+ 
+ [Term]
+ id: WBPhenotype:0001950
+ name: diplotene region organization variant
+ def: "Animals exhibit variations from control animals in the organization of the germ cell nuclei in the gonad that are in the diplotene stage. In C. elegans the diplotene region follows the pachytene region and occurs after the loop in the gonad arm (the turn into the proximal gonad arm). In the diplotene region cells become organized into a single file." [WB:WBPerson557]
+ is_a: WBPhenotype:0001355 ! gonad morphology variant
+ is_a: WBPhenotype:0001947 ! diplotene progression during oogenesis variant
+ 
+ 
+ [Term]
+ id: WBPhenotype:0001951
+ name: pachytene region organization variant
+ def: "Animals exhibit variations from control animals in the organization of the germ cell nuclei in the gonad that are in the pachytene stage. In C. elegans the pachytene region lies just distal to the germline's transition zone, where germ cells coordinately switch into the leptotene/zygotene stage from the premeiosis stage (WormAtlas)." [WB:WBPerson557]
+ is_a: WBPhenotype:0001355 ! gonad morphology variant
+ 
+ 
+ [Term]
+ id: WBPhenotype:0001952
+ name: germline nuclear positioning variant
+ def: "Variations in the directed movement/or positioning of a nucleus to a specific location within the germline compared to control." [WB:WBPerson557]
+ is_a: WBPhenotype:0000511 ! nuclear positioning variant
+ 
+ 
+ [Term]
+ id: WBPhenotype:0001953
+ name: nuclear fallout
+ def: "Nuclei have fallen out of developing compartments in the germline into the rachis." [WB:WBPerson557]
+ is_a: WBPhenotype:0001952 ! germline nuclear positioning variant
+ 
+ 
+ [Term]
  id: WBPhenotype:0004001
  name: hermaphrodite mating variant

[Obo-phenotype-commits] obo/ontology/phenotype human_disease.obo, 1.351, 1.352 mosquito_insecticide

[Obo-phenotype-commits] obo/ontology/phenotype human_disease.obo, 1.351, 1.352 mosquito_insecticide_resistance.obo, 1.1063, 1.1064 worm_phenotype.obo, 1.166, 1.167