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 - Cervix carcinoma

Debug Stats

### Total Build Time: 144 ms 38.354 KB
CONCEPT_NAME gt=9 ms Completed: 9 ms rowSize= 330 bytes
CONCEPT_SOLR_HIT_STATS gt=0 Completed: 0 ms rowSize= 14 bytes
CONCEPT_DEFINITION gt=0 Completed: 0 ms rowSize= 1.274 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=2 ms Completed: 2 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=10 ms Completed: 10 ms rowSize= 106 bytes
CONCEPT_GENES gt=111 ms Completed: 111 ms rowSize= 35.433 KB
CONCEPT_XREFS gt=11 ms Completed: 11 ms rowSize= 1.150 KB
CONCEPT_ANCILLARY gt=1 ms Completed: 1 ms rowSize= 14 bytes
Reload Stats

Disease (1)

Cervix carcinoma C0302592

Definition (1)

The cervix is the lower part of the uterus, the place where a baby grows during pregnancy. Cervical cancer is caused by several types of a virus called human papillomaviruses (HPV). The virus spreads through sexual contact. Most women's bodies are able to fight HPV infection. But sometimes the virus leads to cancer. You're at higher risk if you smoke, have many children, use birth control pills for a long time, or have HIV infection.

Cervical cancer may not cause any symptoms at first, but later, you may have pelvic pain or bleeding from the vagina. It usually takes several years for normal cells in the cervix to turn into cancer cells. Your health care provider can find abnormal cells by doing a Pap test - examining cells from the cervix under a microscope. By getting regular Pap tests and pelvic exams you can find and treat changing cells before they turn into cancer.

A vaccine for girls and young women protects against the four types of HPV that cause most cervical cancers.

NIH: National Cancer Institute

Genes (402)

Species:

human : 400

mouse : 2

Page Size

Current 25

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Current 1

Species	Gene	GeneId	Gene Name	Evidence
Mouse	S100P	6286	S100 calcium binding protein P	NCI, Score=801, Pubmed Id: 16012747, UMLKSK CUI: C0302592 Expression of S100P protein correlates with and contributes to the tumorigenic capacity of HeLa cervical carcinoma cells.
Mouse	MCM7	4176	minichromosome maintenance complex component 7	NCI, Score=801, Pubmed Id: 17018593, UMLKSK CUI: C0302592 Furthermore, E7 induced cervical cancer formation even when the E7-pRb interaction was disrupted by the use of a knock-in mouse carrying an E7-resistant mutant Rb allele. pRb inactivation was necessary but not sufficient for E7 to overcome differentiation-induced or DNA damage-induced cell cycle arrest, and expression patterns of the E2F-responsive genes Mcm7 and cyclin E indicate that other E2F regulators besides pRb are important targets of E7. NCI, Score=801, Pubmed Id: 14678972, UMLKSK CUI: C0302592 We then used our mouse model to identify minichromosome maintenance protein 7 (MCM7), an E2F-induced cellular DNA replication factor, as a novel biomarker for cervical cancer.
Human	LOC100507436	100507436		GENERIF, Score=1000, Pubmed Id: 17389016, UMLKSK CUI: C0302592 active MICA motifs have roles in immune activation in cervical cancer GAD, Score=1000, Pubmed Id: 16061555, UMLKSK CUI: C0302592 Title:Analysis of the entire HLA region in susceptibility for cervical cancer: a comprehensive study.\|Association:Not Found\|Conclusion:There is an association of the region containing the HLA-DQ and HLA-DR genes with the risk of developing squamous cell carcinoma. An increased risk was observed for carriers of allele 184 at the MICA locus, in particular for homozygotes, suggesting a recessive effect.
Human	CCR2	729230	chemokine (C-C motif) receptor 2	GENERIF, Score=1000, Pubmed Id: 17688234, UMLKSK CUI: C0302592 The CCR-2 64I variant was associated with decreased risk of cervical cancer; homozygote carriers of the 64I variant had an odds ratio of 0.31 (0.12-0.77) GAD, Score=1000, Pubmed Id: 15721423, UMLKSK CUI: C0302592 Title:Protective role of the polymorphism CCR2-64I in the progression from squamous intraepithelial lesions to invasive cervical carcinoma.\|Association:Y\|Conclusion:These findings suggest that CCR2-64I polymorphism might have a protective role in the evolution from high-grade SIL to ICC.
Human	GGT2	728441	gamma-glutamyltransferase 2	NCI, Score=801, Pubmed Id: 30536, UMLKSK CUI: C0302592 Combinations of carcinoembryonic antigen (CEA), gamma glutamyl transpeptidase (GGT), pregnancy-associated macroglobulin (PAM) and placenta-like alkaline phosphatase (PLAP) were studied in groups of patients with ovarian and cervical cancer. NCI, Score=801, Pubmed Id: 30536, UMLKSK CUI: C0302592 In cervical cancer, CEA and GGT reflected tumor burden, while PLAP showed just the reverse--the highest degree of positivity being present in minimal disease.
Human	HES5	388585	hairy and enhancer of split 5 (Drosophila)	GENERIF, Score=901, Pubmed Id: 17388915, UMLKSK CUI: C0302592 expression significantly higher in squamous cervical carcinoma than in CIN as well as higher in CIN than normal cervical epithelia
Human	SGMS1	259230	sphingomyelin synthase 1	GENERIF, Score=673, Pubmed Id: 17449912, UMLKSK CUI: C0302592 Data show that sphingomyelin synthases SMS1 and SMS2 are co-expressed in a variety of cell types and function as the key Golgi- and plasma membrane-associated SM synthases in human cervical carcinoma HeLa cells, respectively
Human	PAOX	196743	polyamine oxidase (exo-N4-amino)	Click here to display 3 evidence detail records.
Human	ZNF384	171017	zinc finger protein 384	GENERIF, Score=983, Pubmed Id: 11956602, UMLKSK CUI: C0302592 expression in pelvic lymph nodes and primary tumors in early stage cervical carcinomas
Human	DTX3L	151636	deltex 3-like (Drosophila)	GENERIF, Score=1000, Pubmed Id: 18618715, UMLKSK CUI: C0302592 Overexpression of DTX3L, PIK3R4, ATP2C1, and SLC25A36, all located at 3q21.1-23 are associated with cervical cancer
Human	GIPC3	126326	GIPC PDZ domain containing family, member 3	NCI, Score=801, Pubmed Id: 11836571, UMLKSK CUI: C0302592 GIPC3 mRNA was expressed in cervical cancer cell line HeLa S3, chronic myelogenous leukemia cell line K-562, and melanoma cell line G-361.
Human	HIST4H4	121504	histone cluster 4, H4	NCI, Score=801, Pubmed Id: 9808153, UMLKSK CUI: C0302592 Furthermore, our data indicate that HiNF-P/H4TF-2 may functionally compensate for HiNF-M/IRF-2 at Site II to regulate histone H4 gene transcription in HeLa S3 cervical carcinoma cells during early S phase.
Human	DCD	117159	dermcidin	NCI, Score=801, Pubmed Id: 10883668, UMLKSK CUI: C0302592 The human cervical carcinoma, Yumoto, which also induced cachexia in recipiant animals, showed expression of PIF in tumour, serum and urine in control and vehicle-treated mice, but was absent in mice treated with 5-dFUrd.
Human	KIR3DL3	115653	killer cell immunoglobulin-like receptor, three domains, long cytoplasmic tail, 3	GAD, Score=1000, Pubmed Id: 15730517, UMLKSK CUI: C0302592 Title:A population-based cohort study of KIR genes and genotypes in relation to cervical intraepithelial neoplasia.\|Association:Not Found\|Conclusion:It was concluded that certain KIR genes and genotypes may associate with cervical neoplasia.
Human	TMEM54	113452	transmembrane protein 54	NCI, Score=801, Pubmed Id: 11724320, UMLKSK CUI: C0302592 Beta-casein-like protein (BCLP) is a putative protein on cervical cancer and exhibits immunological characteristics similar to those of bovine beta-casein.
Human	NACC1	112939	nucleus accumbens associated 1, BEN and BTB (POZ) domain containing	GENERIF, Score=983, Pubmed Id: 18347169, UMLKSK CUI: C0302592 NAC-1 may play an important role in cervical carcinomas
Human	MYLK3	91807	myosin light chain kinase 3	NCI, Score=801, Pubmed Id: 11976941, UMLKSK CUI: C0302592 Myosin light chain kinase modulates hypotonicity-induced Ca2+ entry and Cl- channel activity in human cervical cancer cells.
Human	RBM17	84991	RNA binding motif protein 17	NCI, Score=801, Pubmed Id: 14578179, UMLKSK CUI: C0302592 Interestingly, this study revealed that overexpression of SPF45 in HeLa, a cervical carcinoma cell line, resulted in drug resistance to doxorubicin and vincristine, two chemotherapeutic drugs commonly used in cancer. GENERIF, Score=694, Pubmed Id: 14578179, UMLKSK CUI: C0302592 overexpression of SPF45 in HeLa, a cervical carcinoma cell line, resulted in drug resistance to doxorubicin and vincristine
Human	INHBE	83729	inhibin, beta E	NCI, Score=801, Pubmed Id: 9543140, UMLKSK CUI: C0302592 By RT-PCR, the expression of specific messenger RNAs (mRNAs) for the inhibin alpha, activin betaA and betaB subunits, and activin receptor type II and type IIB was investigated: 1) in primary cultures of endometrial (stroma and epithelium) or cervical (epithelium) cells from healthy women; and 2) in specimens of endometrial or cervical carcinoma.
Human	WNT10A	80326	wingless-type MMTV integration site family, member 10A	NCI, Score=801, Pubmed Id: 11350055, UMLKSK CUI: C0302592 In addition to SW480, WNT10A was strongly expressed in HL-60 (promyelocytic leukemia) and Raji (Burkitt;s lymphoma), and WNT6 in HeLa S3 (cervical cancer).
Human	RNF26	79102	ring finger protein 26	NCI, Score=801, Pubmed Id: 15672406, UMLKSK CUI: C0302592 Our results indicate that a major region of LOH in cervical cancer exists within a 3.6-Mb stretch of DNA on 11q23.3-q24.1 and that somatic mutations in RNF26, USP2, TRIM29, POU2F3, or PPP2R1B probably are not important for cervical carcinogenesis.
Human	SMYD3	64754	SET and MYND domain containing 3	GENERIF, Score=884, Pubmed Id: 18452649, UMLKSK CUI: C0302592 SMYD3 plays crucial roles in HeLa cell proliferation and migration/invasion, and that it may be a useful therapeutic target in human cervical carcinomas
Human	SLC46A2	57864	solute carrier family 46, member 2	GENERIF, Score=734, Pubmed Id: 18392855, UMLKSK CUI: C0302592 Affected sib-pairs with cervical cancer susceptibility and high mean age at diagnosis show increased sharing at all microsatellite markers at 9q31.1-33.1 and linkage signals of up to maximum lod-score of 2.74 for TSCOT single nucleotide polymorphisms
Human	AKR1B10	57016	aldo-keto reductase family 1, member B10 (aldose reductase)	GENERIF, Score=1000, Pubmed Id: 17425679, UMLKSK CUI: C0302592 associated with tumor recurrence after surgery and keratinization of squamous cell carcinoma in cervical cancer but not endometrial cancer NCI, Score=801, Pubmed Id: 12394272, UMLKSK CUI: C0302592 Our findings indicate that treatment with the aldose reductase inhibitor, ethyl 1-benzyl-3-hydroxy-2(5H)-oxopyrrole-4-carboxylate (EBPC), enhances the cytotoxic effects of the anticancer agents doxorubicin and cisplatin in HeLa cervical carcinoma cells.
Human	DIABLO	56616	diablo, IAP-binding mitochondrial protein	Click here to display 9 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	C0302592	Cervix carcinoma	0		self

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