GATACA

Credits

Hide Credits

Data

Data - ToppGene Sources

The vast majority of all data in Gataca is from ToppGene so its credits cover data sources that are used within Gataca. The primary reason for utilizing the same sources between these applications is to help ensure consistancy between them. ToppGene, and Gataca, uses data from over 20 sources.

For ToppGene Credits, please visit:

ToppGene Links (Credits)

Data - GUDMAP

GUDMAP

The GUDMAP data within Gataca is only availble within the GUDMAP interface:

Gataca's GUDMAP

Data - UMLSKS

UMLSKS website

Software

Software - Solr

Solr website

Software - PrototypeJS

Prototype JS website

Prototype JavaScript framework, version 1.7
(c) 2005-2010 Sam Stephenson
 
Prototype is freely distributable under the terms of an MIT-style license.
For details, see the Prototype web site: http://www.prototypejs.org/

Software - script.aculo.us

Script.aculo.us website

NOTE: Only the effects.js and dragdrop.js modules from Script.aculo.us are being used.

// script.aculo.us scriptaculous.js v1.9.0, Thu Dec 23 16:54:48 -0500 2010

// Copyright (c) 2005-2010 Thomas Fuchs (http://script.aculo.us, http://mir.aculo.us)
//
// Permission is hereby granted, free of charge, to any person obtaining
// a copy of this software and associated documentation files (the
// "Software"), to deal in the Software without restriction, including
// without limitation the rights to use, copy, modify, merge, publish,
// distribute, sublicense, and/or sell copies of the Software, and to
// permit persons to whom the Software is furnished to do so, subject to
// the following conditions:
//
// The above copyright notice and this permission notice shall be
// included in all copies or substantial portions of the Software.
//
// THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
// EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
// MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND
// NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE
// LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION
// OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION
// WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.
//
// For details, see the script.aculo.us web site: http://script.aculo.us/

Software - canvasXpress

canvasXpress website

CanvasXpress is a javascript library based on the <canvas> tag implemented in HTML5.

This package is currently being used for the Venn Diagram within SetBuilder. Plans are to utilize it in other areas in the generation of other graphs.

Software - Oracle Enterprise Edition

Oracle website

The data within Gataca is being stored in an Oracle 11g database.

Software - Modernizr

modernizr

modernizr provides simple interfacing to check to see what features are available within the client's browser. This is predomantly used to test for HTML 5 features such as canvas or local storage support.

Software - JQTouch

JQTouch website

JQTouch is being used for the mobile edition of Gataca.

Software - jQuery

JQuery website

jQuery is used within JQTouch only.

Software - tablesort

tablesort website

Copyright (c) 2006 Andrew Tetlaw 
http://tetlaw.id.au/view/blog/table-sorting-with-prototype/

Permission is hereby granted, free of charge, to any person
obtaining a copy of this software and associated documentation
files (the "Software"), to deal in the Software without
restriction, including without limitation the rights to use, copy,
modify, merge, publish, distribute, sublicense, and/or sell copies
of the Software, and to permit persons to whom the Software is
furnished to do so, subject to the following conditions:

The above copyright notice and this permission notice shall be
included in all copies or substantial portions of the Software.

Software - Firebug Light

Firebug Light website

firebugx.js - There is no disclaimer in the original file, but it is an open source project. The main website is http://www.getfirebug.com It is an open source project hosted by Google code.

Link-It Detail - Disease - Dependence, Nicotine

Debug Stats

### Total Build Time: 228 ms 38.088 KB
CONCEPT_NAME gt=1 ms Completed: 1 ms rowSize= 338 bytes
CONCEPT_SOLR_HIT_STATS gt=0 Completed: 0 ms rowSize= 14 bytes
Skipping details on: CONCEPT_DEFINITION gt=NONE 0 Completed: 0 ms rowSize= 0 bytes
Skipping details on: CONCEPT_SYNONYM gt=NONE 0 Completed: 0 ms rowSize= 0 bytes
Skipping details on: CONCEPT_TEXT gt=NONE 0 Completed: 0 ms rowSize= 0 bytes
CONCEPT_SEMANTIC_TYPE gt=0 Completed: 0 ms rowSize= 14 bytes
Skipping details on: CONCEPT_NAMESPACE gt=NONE 0 Completed: 0 ms rowSize= 0 bytes
CONCEPT_PARENTS gt=0 Completed: 0 ms rowSize= 7 bytes
CONCEPT_CHILDREN gt=0 Completed: 0 ms rowSize= 8 bytes
CONCEPT_ANCESTRAL_ROOTS gt=0 Completed: 0 ms rowSize= 15 bytes
CONCEPT_RELATIONSHIPS gt=4 ms Completed: 4 ms rowSize= 1.669 KB
CONCEPT_GENES gt=221 ms Completed: 221 ms rowSize= 34.864 KB
CONCEPT_XREFS gt=2 ms Completed: 2 ms rowSize= 1.154 KB
CONCEPT_ANCILLARY gt=0 Completed: 0 ms rowSize= 14 bytes
Reload Stats

Disease (1)

Dependence, Nicotine C0028043

Relationships (2)

Relation Types:

diso_to_diso : 2

Relationships:

isa : 1

permuted_term_of : 1

Relation Type	Co-Occuring Concept Count	Relationship	Concept
DISO_to_DISO		isa	Compulsive tobacco user syndrome C0040332
DISO_to_DISO		permuted_term_of	Dependence, Nicotine C0028043

Genes (26)

Species:

human : 26

Page Size

Current 25

100

250

ALL

Page 1 of 2

Prior Page

Current 1

Species	Gene	GeneId	Gene Name	Evidence
Human	TPH2	121278	tryptophan hydroxylase 2	GENERIF, Score=1000, Pubmed Id: 17986837, UMLKSK CUI: C0028043 TPH2 703G/T SNP is related to nicotine dependence and is associated with the age of smoking onset
Human	PPP1R1B	84152	protein phosphatase 1, regulatory (inhibitor) subunit 1B	GENERIF, Score=1000, Pubmed Id: 17171661, UMLKSK CUI: C0028043 Potential involvement of PPP1R1B in the etiology of nicotine dependence
Human	SHC3	53358	SHC (Src homology 2 domain containing) transforming protein 3	GENERIF, Score=1000, Pubmed Id: 17179996, UMLKSK CUI: C0028043 11 SNPs within SHC3 were examined to determine the association with nicotine dependence (ND) in either African-Americans (AA) or European-Americans (EA); three SNPs for AAs and one for EAs were significantly associated with at least one ND
Human	GABARAP	11337	GABA(A) receptor-associated protein	GENERIF, Score=1000, Pubmed Id: 17164261, UMLKSK CUI: C0028043 GABARAP and DLG4 genes are involved in the etiology of nicotine dependence in European-American smokers
Human	NRXN1	9378	neurexin 1	GENERIF, Score=1000, Pubmed Id: 18270208, UMLKSK CUI: C0028043 NRXN1 gene represents a strong candidate for involvement in the etiology of nicotine dependence
Human	YWHAG	7532	tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, gamma polypeptide	GENERIF, Score=1000, Pubmed Id: 17284169, UMLKSK CUI: C0028043 Both single marker and haplotype analyses were negative for the Ywhag gene association with smoking initiation and nicotine dependence
Human	TPH1	7166	tryptophan hydroxylase 1	GENERIF, Score=1000, Pubmed Id: 17986837, UMLKSK CUI: C0028043 TPH1 779A/C SNP is related to nicotine dependence and is associated with smoking status discriminating smokers from never-smokers and showed a tendency for an association with the degree of nicotine dependence GENERIF, Score=1000, Pubmed Id: 15635702, UMLKSK CUI: C0028043 The positive heterosis effects with respect to nicotine addiction and personality support the idea that the TPH1 gene exerts pleiotropic effects
Human	SLC6A3	6531	solute carrier family 6 (neurotransmitter transporter), member 3	GENERIF, Score=1000, Pubmed Id: 14685824, UMLKSK CUI: C0028043 There may be an interactive effect between the SLC6A3 and early smoking onset on modulating the susceptibility of nicotine dependence GENERIF, Score=1000, Pubmed Id: 17427187, UMLKSK CUI: C0028043 A haplotype in the 3' untranslated region of DAT1 modifies the effect of lifetime traumatic experience on the severity of nicotine dependence
Human	PTEN	5728	phosphatase and tensin homolog	GENERIF, Score=1000, Pubmed Id: 16331670, UMLKSK CUI: C0028043 Results suggest that the PTEN gene may be involved in the etiology of both smoking initiation and nicotine dependence
Human	TAS2R38	5726	taste receptor, type 2, member 38	GENERIF, Score=901, Pubmed Id: 18524836, UMLKSK CUI: C0028043 TAS2R38 single nucleotide polymorphisms are an important factor in determining nicotine dependence in African Americans
Human	MAOA	4128	monoamine oxidase A	GENERIF, Score=1000, Pubmed Id: 16207390, UMLKSK CUI: C0028043 there is an important association between MAOA polymorphisms and smoking status, suggesting a possible role of MAOA gene variants in nicotine dependence
Human	DRD3	1814	dopamine receptor D3	GENERIF, Score=1000, Pubmed Id: 18348205, UMLKSK CUI: C0028043 DRD3 is significantly associated with nicotine dependence in European-American smokers, and that rs6280, a functional polymorphism causing an amino acid change (Ser9Gly), likely is causative of the association between DRD3 and ND
Human	DRD1	1812	dopamine receptor D1	GENERIF, Score=1000, Pubmed Id: 18092181, UMLKSK CUI: C0028043 Single-nucleotide polymorphisms of the dopamine D(1) receptor gene is associated with nicotine dependence
Human	DDC	1644	dopa decarboxylase (aromatic L-amino acid decarboxylase)	GENERIF, Score=1000, Pubmed Id: 17184203, UMLKSK CUI: C0028043 Association of the DOPA decarboxylase (DDC) gene on chromosome 7p11 with measures of nicotine dependence GENERIF, Score=1000, Pubmed Id: 15879433, UMLKSK CUI: C0028043 Single nucleotide polymorphisms in the dopa decarboxylase gene is associated with nicotine dependence GENERIF, Score=1000, Pubmed Id: 16740595, UMLKSK CUI: C0028043 association of alleles and haplotypes at the DOPA decarboxylase (DDC) locus with the DSM-IV diagnosis of nicotine dependence
Human	CYP2E1	1571	cytochrome P450, family 2, subfamily E, polypeptide 1	GENERIF, Score=1000, Pubmed Id: 12777962, UMLKSK CUI: C0028043 association of CYP2E1*1D with alcohol and nicotine dependence suggests that CYP2E1 may contribute to the development of these dependencies
Human	CYP2A6	1548	cytochrome P450, family 2, subfamily A, polypeptide 6	GENERIF, Score=1000, Pubmed Id: 16402086, UMLKSK CUI: C0028043 CYP2A6 genotypes are related with nicotine dependence, influencing smoking habits and withdrawal symptoms in quitting smoking
Human	CNR1	1268	cannabinoid receptor 1 (brain)	GENERIF, Score=1000, Pubmed Id: 18606954, UMLKSK CUI: C0028043 CNR1 gene assosiated with nicotine dependence
Human	CHRNB4	1143	cholinergic receptor, nicotinic, beta 4 (neuronal)	GENERIF, Score=734, Pubmed Id: 18618000, UMLKSK CUI: C0028043 In the 2,827 long-term smokers examined, common susceptibility and protective haplotypes at the CHRNA5-A3-B4 locus were associated with nicotine dependence severity
Human	CHRNB2	1141	cholinergic receptor, nicotinic, beta 2 (neuronal)	GENERIF, Score=1000, Pubmed Id: 15154117, UMLKSK CUI: C0028043 A common haplotype of the nicotine acetylcholine receptor alpha 4 subunit gene is associated with vulnerability to nicotine addiction in men GENERIF, Score=1000, Pubmed Id: 11906688, UMLKSK CUI: C0028043 CHRNB2 is a logical candidate for influencing smoking behavior and nicotine dependence
Human	CHRNB1	1140	cholinergic receptor, nicotinic, beta 1 (muscle)	GENERIF, Score=1000, Pubmed Id: 16874522, UMLKSK CUI: C0028043 Association of the nicotinic acetylcholine receptor beta1 subunit (CHRNB1) and M1 muscarinic acetylcholine receptor (CHRM1) with vulnerability for nicotine dependence
Human	CHRNA7	1139	cholinergic receptor, nicotinic, alpha 7 (neuronal)	GENERIF, Score=1000, Pubmed Id: 15896732, UMLKSK CUI: C0028043 Results indicate that the alpha7 nicotinic receptor subunit may mediate some aspects of nicotine dependence
Human	CHRNA5	1138	cholinergic receptor, nicotinic, alpha 5 (neuronal)	GENERIF, Score=1000, Pubmed Id: 18227835, UMLKSK CUI: C0028043 A common haplotype in the CHRNA5/CHRNA3 gene cluster on chromosome 15 contains alleles, which predispose to nicotine dependence GENERIF, Score=1000, Pubmed Id: 18957677, UMLKSK CUI: C0028043 The CHRNA5-A3 region on chromosome 15q24-25.1 is a risk factor both for nicotine dependence and for lung cancer.(
Human	CHRNA4	1137	cholinergic receptor, nicotinic, alpha 4 (neuronal)	GENERIF, Score=734, Pubmed Id: 17768273, UMLKSK CUI: C0028043 Results of analyses ranging from basic biological approaches to clinical outcome data provide consistent evidence that 2 single-nucleotide polymorphisms in CHRNA4 are functional at a biological level and are associated with nicotine dependence phenotypes GENERIF, Score=1000, Pubmed Id: 15154117, UMLKSK CUI: C0028043 A common haplotype of the nicotine acetylcholine receptor alpha 4 subunit gene is associated with vulnerability to nicotine addiction in men GENERIF, Score=1000, Pubmed Id: 15790597, UMLKSK CUI: C0028043 Authors' findings provide convincing evidence for the involvement of CHRNA4 in nicotine addiction
Human	CCK	885	cholecystokinin	GAD, Score=1000, Pubmed Id: 11509018, UMLKSK CUI: C0028043 Title:Cholecystokinin (cck) gene as a possible risk factor for smoking: a replication in twoindependent samples\|Association:Y\|Conclusion:These results are consistent with a role of the CCK gene as a risk factor for smoking.
Human	BDNF	627	brain-derived neurotrophic factor	GENERIF, Score=1000, Pubmed Id: 16152573, UMLKSK CUI: C0028043 The significant association of BDNF variants with nicotine dependence (ND) implies that this gene plays a role in the etiology of ND in European-Americans and that the involvement of BDNF is gender specific

XRefs (1)

XRef Types:

cui : 1

ToppGene Datasets:

none : 1

ToppGene Datasets	XRef Type	XRef Id	XRef	Values	Source	Top % Rank
	CUI	C0028043	Dependence, Nicotine	0		self

Gataca is supported by...