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 - Adverse Event Associated with Infection

Debug Stats

### Total Build Time: 25 ms 27.793 KB
CONCEPT_NAME gt=1 ms Completed: 1 ms rowSize= 376 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=9 ms Completed: 9 ms rowSize= 3.979 KB
CONCEPT_GENES gt=10 ms Completed: 10 ms rowSize= 22.204 KB
CONCEPT_XREFS gt=5 ms Completed: 5 ms rowSize= 1.173 KB
CONCEPT_ANCILLARY gt=0 Completed: 0 ms rowSize= 14 bytes
Reload Stats

Disease (1)

Adverse Event Associated with Infection C1556682

Relationships (8)

Relation Types:

diso_to_diso : 8

Relationships:

isa : 8

Relation Type	Co-Occuring Concept Count	Relationship	Concept
DISO_to_DISO		isa	Febrile Neutropenia without Clinically or Microbiologically Documented Infection with Absolute Neutrophil Count Less Than 1 X 10e9 per Liter and Temperature Greater Than or Equal to 38 Point 5 Degrees Celsius C1556689
DISO_to_DISO		isa	Infection (documented clinically or microbiologically) with Grade 3 or 4 neutrophils (ANC <1.0 x 10e9/L) C1556693
DISO_to_DISO		isa	Infection Adverse Event with Normal Absolute Neutrophil Count or Grade 1 or 2 Neutrophils C1560951
DISO_to_DISO		isa	Infection Adverse Event with Unknown Absolute Neutrophil Count C1559868
DISO_to_DISO		isa	Infection Other Adverse Event C1560945
DISO_to_DISO		isa	Infectious Colitis Adverse Event C1556683
DISO_to_DISO		isa	Opportunistic Infection Adverse Event Associated with Grade 2 or Greater Lymphopenia C1557109
DISO_to_DISO		isa	Viral Hepatitis Adverse Event C1963279

Genes (24)

Species:

human : 24

Species	Gene	GeneId	Gene Name	Evidence
Human	GPR98	84059	G protein-coupled receptor 98	OMIM, Score=833, UMLKSK CUI: C1556682 Seizures occur in absence of intracranial infection or defined pathologic or traumatic cause
Human	SLC35C1	55343	solute carrier family 35 (GDP-fucose transporter), member C1	OMIM, Score=1000, UMLKSK CUI: C1556682 Absence of pus formation at site of infection
Human	SBDS	51119	Shwachman-Bodian-Diamond syndrome	OMIM, Score=1000, UMLKSK CUI: C1556682 Increased susceptibility to infection
Human	MLYCD	23417	malonyl-CoA decarboxylase	OMIM, Score=1000, UMLKSK CUI: C1556682 Symptoms may be precipitated by infection
Human	SEC63	11231	SEC63 homolog (S. cerevisiae)	OMIM, Score=833, UMLKSK CUI: C1556682 Rare infection of cysts
Human	ADAMTS13	11093	ADAM metallopeptidase with thrombospondin type 1 motif, 13	OMIM, Score=1000, UMLKSK CUI: C1556682 Triggered by pregnancy, drugs, chemotherapy, cancer, bone marrow transplantation, infection
Human	SEPT9	10801	septin 9	OMIM, Score=1000, UMLKSK CUI: C1556682 Episodes are triggered by infection, immunization, surgery, strenuous exercise, cold, pregnancy
Human	RAB7A	7879	RAB7A, member RAS oncogene family	OMIM, Score=1000, UMLKSK CUI: C1556682 Ulcers often lead to infection and amputation
Human	TLR2	7097	toll-like receptor 2	OMIM, Score=1000, UMLKSK CUI: C1556682 Susceptibility to infection by Mycobacterium leprae causing leprosy
Human	TLR1	7096	toll-like receptor 1	OMIM, Score=1000, UMLKSK CUI: C1556682 Susceptibility to infection by Mycobacterium leprae causing leprosy
Human	TBX1	6899	T-box 1	OMIM, Score=1000, UMLKSK CUI: C1556682 Susceptibility to infection
Human	SFTPC	6440	surfactant protein C	OMIM, Score=1000, UMLKSK CUI: C1556682 Congenital form likely autosomal recessive, but later onset form usually idiopathic or associated with hematologic malignancy, lymphoma, or infection
Human	SFTPB	6439	surfactant protein B	OMIM, Score=1000, UMLKSK CUI: C1556682 Congenital form likely autosomal recessive, but later onset form usually idiopathic or associated with hematologic malignancy, lymphoma, or infection
Human	SDHA	6389	succinate dehydrogenase complex, subunit A, flavoprotein (Fp)	OMIM, Score=1000, UMLKSK CUI: C1556682 Lactic acidosis may occur with stress or infection
Human	SCN1A	6323	sodium channel, voltage-gated, type I, alpha subunit	OMIM, Score=833, UMLKSK CUI: C1556682 Seizures occur in absence of intracranial infection or defined pathologic or traumatic cause
Human	PRKCSH	5589	protein kinase C substrate 80K-H	OMIM, Score=833, UMLKSK CUI: C1556682 Rare infection of cysts
Human	PLG	5340	plasminogen	OMIM, Score=1000, UMLKSK CUI: C1556682 Pseudomembrane formation triggered by injury, infection, irritation, surgery
Human	PKLR	5313	pyruvate kinase, liver and RBC	OMIM, Score=1000, UMLKSK CUI: C1556682 Anemia may be exacerbated during infection or pregnancy
Human	HMBS	3145	hydroxymethylbilane synthase	OMIM, Score=1000, UMLKSK CUI: C1556682 Attacks precipitated by drugs (e.g. barbiturates, sulfonamides), alcohol, infection, starvation, and hormonal changes
Human	FOXC2	2303	forkhead box C2 (MFH-1, mesenchyme forkhead 1)	OMIM, Score=1000, UMLKSK CUI: C1556682 Cellulitis or infection may occur
Human	CSF2RB	1439	colony stimulating factor 2 receptor, beta, low-affinity (granulocyte-macrophage)	OMIM, Score=1000, UMLKSK CUI: C1556682 Congenital form likely autosomal recessive, but later onset form usually idiopathic or associated with hematologic malignancy, lymphoma, or infection
Human	CPT1A	1374	carnitine palmitoyltransferase 1A (liver)	OMIM, Score=1000, UMLKSK CUI: C1556682 Precipitated by infection, fasting, or intercurrent illness
Human	CD40LG	959	CD40 ligand	OMIM, Score=790, UMLKSK CUI: C1556682 Pneumocytosis carinii infection (12 to 42%)
Human	ACADVL	37	acyl-CoA dehydrogenase, very long chain	OMIM, Score=1000, UMLKSK CUI: C1556682 Muscle weakness associated with fasting or infection OMIM, Score=1000, UMLKSK CUI: C1556682 Myopathic episodes triggered by exercise, fasting, infection, cold temperatures

XRefs (1)

XRef Types:

cui : 1

ToppGene Datasets:

none : 1

ToppGene Datasets	XRef Type	XRef Id	XRef	Values	Source	Top % Rank
	CUI	C1556682	Adverse Event Associated with Infection	0		self

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