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 - Colorectal Cancer

Debug Stats

### Total Build Time: 117 ms 38.008 KB
CONCEPT_NAME gt=1 ms Completed: 1 ms rowSize= 332 bytes
CONCEPT_SOLR_HIT_STATS gt=0 Completed: 0 ms rowSize= 14 bytes
CONCEPT_DEFINITION gt=0 Completed: 0 ms rowSize= 1.391 KB
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=6 ms Completed: 6 ms rowSize= 4.102 KB
CONCEPT_GENES gt=109 ms Completed: 109 ms rowSize= 30.970 KB
CONCEPT_XREFS gt=1 ms Completed: 1 ms rowSize= 1.151 KB
CONCEPT_ANCILLARY gt=0 Completed: 0 ms rowSize= 14 bytes
Reload Stats

Disease (1)

Colorectal Cancer C1527249

Definition (1)

Cancer of the colon or rectum is also called colorectal cancer. In the United States, it is the fourth most common cancer in men and women. Caught early, it is often curable.

It is more common in people over 50, and the risk increases with age. You are also more likely to get it if you have

Polyps - growths inside the colon and rectum that may become cancerous
A diet that is high in fat
A family history or personal history of colorectal cancer
Ulcerative colitis or Crohn's disease

Symptoms can include blood in the stool, narrower stools, a change in bowel habits and general stomach discomfort. However, you may not have symptoms at first, so screening is important. Everyone who is 50 or older should be screened for colorectal cancer. Colonoscopy is one method that your doctor can use to screen for colorectal cancer. Treatments for colorectal cancer include surgery, chemotherapy, radiation or a combination.

NIH: National Cancer Institute

Relationships (8)

Relation Types:

diso_to_diso : 8

Relationships:

alias_of : 1

permuted_term_of : 1

related_to : 5

used_for : 1

Relation Type	Co-Occuring Concept Count	Relationship	Concept
DISO_to_DISO		related_to	Anal carcinoma C0279637
DISO_to_DISO		used_for	COLORECTAL NEOPL C0009404
DISO_to_DISO		alias_of	Colon Carcinoma C0699790
DISO_to_DISO		related_to	Colonic Diseases C0009373
DISO_to_DISO		related_to	Colonic Polyps C0009376
DISO_to_DISO		permuted_term_of	Colorectal Cancer C1527249
DISO_to_DISO		related_to	Intestinal Cancer C0346627
DISO_to_DISO		related_to	Rectal Diseases C0034882

Genes (496)

Species:

human : 496

Page Size

Current 25

100

250

ALL

Page 1 of 20

Prior Page

Current 1

Species	Gene	GeneId	Gene Name	Evidence
Human	CD24	100133941	CD24 molecule	GENERIF, Score=1000, Pubmed Id: 16166435, UMLKSK CUI: C1527249 CD24 is commonly up-regulated in colorectal cancer and is a new independent prognostic marker
Human	MIR34C	407042	microRNA 34c	GENERIF, Score=1000, Pubmed Id: 18519671, UMLKSK CUI: C1527249 miR-34b/c and BTG4 are novel tumor suppressors in colorectal cancer (CRC) and that the miR-34b/c CpG island, which bidirectionally regulates miR-34b/c and BTG4, is a frequent target of epigenetic silencing in CRC
Human	MIR34B	407041	microRNA 34b	GENERIF, Score=1000, Pubmed Id: 18519671, UMLKSK CUI: C1527249 miR-34b/c and BTG4 are novel tumor suppressors in colorectal cancer (CRC) and that the miR-34b/c CpG island, which bidirectionally regulates miR-34b/c and BTG4, is a frequent target of epigenetic silencing in CRC
Human	MIR135A1	406925	microRNA 135a-1	GENERIF, Score=1000, Pubmed Id: 18632633, UMLKSK CUI: C1527249 the miR-135 family regulates APC in colorectal cancer
Human	CRAC1	338377	colorectal adenoma and carcinoma 1	GENERIF, Score=1000, Pubmed Id: 12885466, UMLKSK CUI: C1527249 our findings suggest that CRAC1 is unlikely to be implicated in the development of colorectal cancer in general or, if involved, it is through small somatic mutations or other loss of function mechanisms rather than allele loss GENERIF, Score=1000, Pubmed Id: 18084292, UMLKSK CUI: C1527249 Study mapped a high-penetrance gene (CRAC1; also known as HMPS) associated with colorectal cancer in the Ashkenazi population to a 0.6-Mb region on chromosome 15
Human	NEIL2	252969	nei endonuclease VIII-like 2 (E. coli)	GENERIF, Score=694, Pubmed Id: 17029639, UMLKSK CUI: C1527249 A novel missense variant C367A and several other mutations were found in familial colorectal cancer DNA suggesting a limited role for this gene in the devlopment of CRC
Human	DNAJB1P1	171221	DnaJ (Hsp40) homolog, subfamily B, member 1 pseudogene 1	GENERIF, Score=1000, Pubmed Id: 12835518, UMLKSK CUI: C1527249 Hsp 70 and Hsp 40 may be tumor markers for colorectal cancer
Human	SLC5A8	160728	solute carrier family 5 (sodium/monocarboxylate cotransporter), member 8	GENERIF, Score=734, Pubmed Id: 16670197, UMLKSK CUI: C1527249 Na(+)/monocarboxylate transport expression may be a favorable indicator of colorectal cancer prognosis
Human	SGOL1	151648	shugoshin-like 1 (S. pombe)	GENERIF, Score=861, Pubmed Id: 18635744, UMLKSK CUI: C1527249 findings suggest that hSgo1-downregulated colorectal cancers have a clinicopathological character of chromosome instability (CIN), and hSgo1 downregulation leads to CIN in colorectal cancer cells
Human	DACT3	147906	dishevelled-binding antagonist of beta-catenin 3	GENERIF, Score=734, Pubmed Id: 18538736, UMLKSK CUI: C1527249 Epigenetic repression of DACT3 leads to aberrant Wnt-beta-catenin signaling in colorectal cancer cells
Human	GATA5	140628	GATA binding protein 5	GENERIF, Score=1000, Pubmed Id: 14612389, UMLKSK CUI: C1527249 in colorectal cancer and gastric cancer promoter hypermethylation and transcriptional silencing are frequent for GATA-4 and -5
Human	ARL11	115761	ADP-ribosylation factor-like 11	GENERIF, Score=1000, Pubmed Id: 17449901, UMLKSK CUI: C1527249 Cysteine148Arginine variant is associated with a moderately increased risk of colorectal cancer, both in sporadic and familial cases GENERIF, Score=1000, Pubmed Id: 18337727, UMLKSK CUI: C1527249 ARLTS1 germline variants are not associated with breast, prostate, and colorectal cancer
Human	SAT2	112483	spermidine/spermine N1-acetyltransferase family member 2	GENERIF, Score=734, Pubmed Id: 18949426, UMLKSK CUI: C1527249 expression of SSAT mediated by Ad-SSAT infection inhibits the growth of colorectal cancer cells
Human	LEMD1	93273	LEM domain containing 1	GENERIF, Score=1000, Pubmed Id: 15254688, UMLKSK CUI: C1527249 LEM domain-containing 1 is a novel testis-specific gene expressed in colorectal cancers
Human	UBXN11	91544	UBX domain protein 11	GENERIF, Score=734, Pubmed Id: 18974390, UMLKSK CUI: C1527249 Both CD4+ and CD8+ T-cell responses against COA-1 can occur in colorectal cancer patients with metastatic disease
Human	REG4	83998	regenerating islet-derived family, member 4	GENERIF, Score=1000, Pubmed Id: 18187959, UMLKSK CUI: C1527249 serum Reg IV concentration may predict metastatic recurrence of colorectal cancer in the liver.Reg IV protein expression induced by growth factors may function as a growth-promoting and/or an antiapoptotic factor in the peritumoral mucosa of CRC
Human	DYNLRB1	83658	dynein, light chain, roadblock-type 1	GENERIF, Score=1000, Pubmed Id: 16778097, UMLKSK CUI: C1527249 Silencing of km23, either through somatic genetic mutation or promoter hypermethylation, is rare in ovarian, breast, and colorectal cancers
Human	TXNDC5	81567	thioredoxin domain containing 5 (endoplasmic reticulum)	GENERIF, Score=1000, Pubmed Id: 17895523, UMLKSK CUI: C1527249 upregulation of TXNDC5 are involved in the early development of colorectal cancer
Human	ZKSCAN3	80317	zinc finger with KRAB and SCAN domains 3	GENERIF, Score=1000, Pubmed Id: 18519692, UMLKSK CUI: C1527249 ZKSCAN3 adds to an expanding set of encoded products contributing to the progression of colorectal cancer
Human	GALNT12	79695	UDP-N-acetyl-alpha-D-galactosamine:polypeptide N-acetylgalactosaminyltransferase 12 (GalNAc-T12)	GENERIF, Score=1000, Pubmed Id: 15557789, UMLKSK CUI: C1527249 The expression of pp-GalNAc-T12 seems to be a negative marker especially of metastatic gastric and colorectal cancer
Human	NEIL1	79661	nei endonuclease VIII-like 1 (E. coli)	GENERIF, Score=694, Pubmed Id: 17029639, UMLKSK CUI: C1527249 A T434+2C mutation was found in familial colorectal cancer DNA suggesting a limited role for this gene in the devlopment of CRC
Human	CENPH	64946	centromere protein H	GENERIF, Score=1000, Pubmed Id: 15930286, UMLKSK CUI: C1527249 CENP-H is up-regulated and plays an important role in the aneuploidy frequently observed in colorectal cancers
Human	CSMD1	64478	CUB and Sushi multiple domains 1	GENERIF, Score=1000, Pubmed Id: 18614856, UMLKSK CUI: C1527249 CSMD1 mutations may play a role in the development of colorectal cancer
Human	SOX17	64321	SRY (sex determining region Y)-box 17	GENERIF, Score=1000, Pubmed Id: 18413743, UMLKSK CUI: C1527249 SOX17 silencing due to promoter hypermethylation is an early event during tumorigenesis and may contribute to aberrant activation of Wnt signaling in colorectal cancer
Human	NOD2	64127	nucleotide-binding oligomerization domain containing 2	Click here to display 6 evidence detail records.

XRefs (1)

XRef Types:

cui : 1

ToppGene Datasets:

none : 1

ToppGene Datasets	XRef Type	XRef Id	XRef	Values	Source	Top % Rank
	CUI	C1527249	Colorectal Cancer	0		self

Gataca is supported by...