GATACA

Credits

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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 - Creutzfeldt-Jakob Syndrome

Debug Stats

### Total Build Time: 55 ms 37.046 KB
CONCEPT_NAME gt=5 ms Completed: 5 ms rowSize= 405 bytes
CONCEPT_SOLR_HIT_STATS gt=0 Completed: 0 ms rowSize= 14 bytes
CONCEPT_DEFINITION gt=0 Completed: 0 ms rowSize= 784 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= 188 bytes
Skipping details on: CONCEPT_NAMESPACE gt=NONE 0 Completed: 0 ms rowSize= 0 bytes
CONCEPT_PARENTS gt=5 ms Completed: 5 ms rowSize= 976 bytes
CONCEPT_CHILDREN gt=0 Completed: 0 ms rowSize= 8 bytes
CONCEPT_ANCESTRAL_ROOTS gt=0 Completed: 0 ms rowSize= 6.647 KB
CONCEPT_RELATIONSHIPS gt=37 ms Completed: 37 ms rowSize= 15.229 KB
CONCEPT_GENES gt=5 ms Completed: 5 ms rowSize= 11.676 KB
CONCEPT_XREFS gt=3 ms Completed: 3 ms rowSize= 1.160 KB
CONCEPT_ANCILLARY gt=0 Completed: 0 ms rowSize= 14 bytes
Reload Stats

Disease (2)

Creutzfeldt-Jakob Syndrome C0022336

Creutzfeldt-Jakob disease

Definition (1)

A rare transmissible encephalopathy most prevalent between the ages of 50 and 70 years. Affected individuals may present with sleep disturbances, personality changes, ATAXIA; APHASIA, visual loss, weakness, muscle atrophy, MYOCLONUS, progressive dementia, and death within one year of disease onset. A familial form exhibiting autosomal dominant inheritance and a new variant CJD (potentially associated with ENCEPHALOPATHY, BOVINE SPONGIFORM) have been described. Pathological features include prominent cerebellar and cerebral cortical spongiform degeneration and the presence of PRIONS. (From N Engl J Med, 1998 Dec 31;339(27))

Semantic Types (1)

Disease or Syndrome (T047)

Parents (2)

C0162534

C0497327

Ancestral Roots

Relationships (102)

Relation Types:

diso_to_anat : 12

diso_to_chem : 16

diso_to_diso : 62

diso_to_gene : 2

diso_to_phen : 5

diso_to_phys : 5

Relationships:

none : 46

alias_of : 1

classifies : 1

clinically_similar : 5

gene_associated_with_disease : 2

gene_product_malfunction_associated_with_disease : 1

is_associated_anatomic_site_of : 2

location_of : 1

manifestation_of : 35

mapped_to : 2

permuted_term_of : 1

related_to : 4

used_for : 1

Page Size

Current 25

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Prior Page

Current 1

Relation Type	Co-Occuring Concept Count	Relationship	Concept
DISO_to_PHEN	177		genetic aspects C0017399
DISO_to_PHEN	175		genetic aspects C0017399
DISO_to_CHEM	137		Prions C0033164
DISO_to_CHEM	118		Prions C0033164
DISO_to_DISO	104		Encephalopathy, Bovine Spongiform C0085209
DISO_to_ANAT	95		Brain C0006104
DISO_to_ANAT	87		Brain C0006104
DISO_to_CHEM	77		PrPSc Proteins C0074204
DISO_to_DISO	69		Complication Aspects C1171258
DISO_to_DISO	68		Complication Aspects C1171258
DISO_to_CHEM	56		PRPSC C0074204
DISO_to_ANAT	42		In Blood C0005768
DISO_to_DISO	30		DEMENTIAS TRANSM C0162534
DISO_to_ANAT	22		In Blood C0005768
DISO_to_CHEM	21		14-3-3 Proteins C0090388
DISO_to_CHEM	21		PrPC Proteins C0074202
DISO_to_PHEN	21		Disease Outbreaks C0012652
DISO_to_DISO	20		DEMENTIAS TRANSM C0162534
DISO_to_CHEM	19		Amyloid C0002716
DISO_to_DISO	19		Alzheimer Disease C0002395
DISO_to_DISO	19		Disease, Iatrogenic C0020732
DISO_to_DISO	19		Encephalopathy, Bovine Spongiform C0085209
DISO_to_PHEN	19		Disease Outbreaks C0012652
DISO_to_ANAT	18		Dura Mater C0013313
DISO_to_CHEM	18		14-3-3 Proteins C0090388

Genes (2)

Species:

human : 2

Species	Gene	GeneId	Gene Name	Evidence
Human	PRNP	5621	prion protein	OMIM, Score=833, UMLKSK CUI: C0022336 Mean age at onset for variant CJD is 29 years (before age 45 years) OMIM, Score=833, UMLKSK CUI: C0022336 Cerebellar signs (more common in variant CJD) OMIM, Score=1000, UMLKSK CUI: C0022336 Incidence of all forms of CJD is 0.5 to 1.5 per million per year OMIM, Score=1000, UMLKSK CUI: C0022336 Three forms of CJD: acquired (including variant), sporadic, and inherited OMIM, Score=1000, UMLKSK CUI: C0022336 Longer disease duration than Creutzfeldt-Jakob disease OMIM, Score=833, UMLKSK CUI: C0022336 Patients with variant CJD are homozygous for met129 polymorphism ({176640.0005}) OMIM, Score=833, UMLKSK CUI: C0022336 Characteristic periodic EEG complexes (only in sporadic and familial CJD, not in variant CJD) OMIM, Score=833, UMLKSK CUI: C0022336 Mean age at onset for sporadic CJD is 60 years (range, 50 to 70 years) OMIM, Score=1000, UMLKSK CUI: C0022336 Rapidly progressive, but slower than Creutzfeldt-Jakob disease ({123400}) OMIM, Score=833, UMLKSK CUI: C0022336 Psychiatric abnormalities (more common presentation in variant CJD) OMIM, Score=833, UMLKSK CUI: C0022336 Brain PrP-immunoreactive amyloid plaques (in 10% if patients with sporadic CJD and in variant CJD)
Human	HLA-DQB1	3119		OMIM, Score=833, UMLKSK CUI: C0022336 Characteristic periodic EEG complexes (only in sporadic and familial CJD, not in variant CJD) OMIM, Score=833, UMLKSK CUI: C0022336 Mean age at onset for sporadic CJD is 60 years (range, 50 to 70 years) OMIM, Score=833, UMLKSK CUI: C0022336 Patients with variant CJD are homozygous for met129 polymorphism ({176640.0005}) OMIM, Score=833, UMLKSK CUI: C0022336 Mean age at onset for variant CJD is 29 years (before age 45 years) OMIM, Score=833, UMLKSK CUI: C0022336 Cerebellar signs (more common in variant CJD) OMIM, Score=833, UMLKSK CUI: C0022336 Brain PrP-immunoreactive amyloid plaques (in 10% if patients with sporadic CJD and in variant CJD) OMIM, Score=1000, UMLKSK CUI: C0022336 Incidence of all forms of CJD is 0.5 to 1.5 per million per year OMIM, Score=1000, UMLKSK CUI: C0022336 Three forms of CJD: acquired (including variant), sporadic, and inherited OMIM, Score=833, UMLKSK CUI: C0022336 Psychiatric abnormalities (more common presentation in variant CJD)

XRefs (1)

XRef Types:

cui : 1

ToppGene Datasets:

none : 1

ToppGene Datasets	XRef Type	XRef Id	XRef	Values	Source	Top % Rank
	CUI	C0022336	Creutzfeldt-Jakob Syndrome	0		self

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