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 - Malignant Female Reproductive System Neoplasm

Debug Stats

### Total Build Time: 22 ms 49.699 KB
CONCEPT_NAME gt=1 ms Completed: 1 ms rowSize= 388 bytes
CONCEPT_SOLR_HIT_STATS gt=0 Completed: 0 ms rowSize= 14 bytes
CONCEPT_DEFINITION gt=0 Completed: 0 ms rowSize= 275 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=5 ms Completed: 5 ms rowSize= 7.810 KB
CONCEPT_GENES gt=15 ms Completed: 15 ms rowSize= 39.993 KB
CONCEPT_XREFS gt=1 ms Completed: 1 ms rowSize= 1.179 KB
CONCEPT_ANCILLARY gt=0 Completed: 0 ms rowSize= 14 bytes
Reload Stats

Disease (1)

Malignant Female Reproductive System Neoplasm C0699889

Definition (1)

Cancer of the female reproductive tract, including the cervix, endometrium, fallopian tubes, ovaries, uterus, and vagina.

Relationships (18)

Relation Types:

diso_to_anat : 4

diso_to_diso : 14

Relationships:

is_abnormal_cell_of_disease : 2

is_associated_anatomic_site_of : 2

isa : 14

Relation Type	Co-Occuring Concept Count	Relationship	Concept
DISO_to_ANAT		is_abnormal_cell_of_disease	Cancer Cell C0334227
DISO_to_ANAT		is_associated_anatomic_site_of	Female Reproductive System C0700038
DISO_to_ANAT		is_abnormal_cell_of_disease	Neoplastic Cell C0597032
DISO_to_ANAT		is_associated_anatomic_site_of	Reproductive system C1261210
DISO_to_DISO		isa	Adenocarcinofibroma C1510778
DISO_to_DISO		isa	Adenosarcoma C0001442
DISO_to_DISO		isa	Carcinoma, Endometrioid C0206687
DISO_to_DISO		isa	Gestational Choriocarcinoma C0349557
DISO_to_DISO		isa	Malignant Mixed Mesodermal (Mullerian) Tumor C1334603
DISO_to_DISO		isa	Malignant Placental Neoplasm C0153572
DISO_to_DISO		isa	Malignant Vaginal Neoplasm C0042237
DISO_to_DISO		isa	Malignant neoplasm of fallopian tube C0153579
DISO_to_DISO		isa	Malignant neoplasm of ovary C1140680
DISO_to_DISO		isa	Malignant neoplasm of vulva C0375071
DISO_to_DISO		isa	Recurrent Female Reproductive System Cancer C1335700
DISO_to_DISO		isa	Rete Ovarii Adenocarcinoma C1514904
DISO_to_DISO		isa	Uterine Cancer C0153567
DISO_to_DISO		isa	Uterine Ligament Adenocarcinoma C1519866

Genes (29)

Species:

human : 29

Page Size

Current 25

100

250

ALL

Page 1 of 2

Prior Page

Current 1

Species	Gene	GeneId	Gene Name	Evidence
Human	MAN1B1	11253	mannosidase, alpha, class 1B, member 1	GENERIF, Score=983, Pubmed Id: 15785934, UMLKSK CUI: C0699889 Increased activity of alpha-mannosidase in the peritoneal fluid is associated with gynecologic cancers and pelvic inflammatory disease
Human	SART3	9733	squamous cell carcinoma antigen recognized by T cells 3	NCI, Score=801, Pubmed Id: 11092984, UMLKSK CUI: C0699889 Both SART3 and ART4 antigens were detectable in the majority of these gynecologic cancers tested. NCI, Score=801, Pubmed Id: 11092984, UMLKSK CUI: C0699889 Therefore, these four antigens and their peptides, including SART3 peptides, would be appropriate molecules for use in specific immunotherapy of HLA-A24(+) gynecologic cancer patients. NCI, Score=801, Pubmed Id: 11092984, UMLKSK CUI: C0699889 These PBMCs lysed HLA-A24(+) SART3(+) gynecologic cancer cells, but not HLA-A24(-) SART3(+) gynecologic cancer cells or HLA-A24(+) normal cells. NCI, Score=801, Pubmed Id: 11092984, UMLKSK CUI: C0699889 Peripheral blood mononuclear cells (PBMCs) of HLA-A24(+) patients with gynecologic cancers were found to produce significant levels of interferon-gamma in response to HLA-A24(+) SART3(+) gynecologic cancer cells after having been stimulated three times in vitro with either SART3(109 - 118) or SART3(315 - 323) peptide.
Human	EBAG9	9166	estrogen receptor binding site associated, antigen, 9	NCI, Score=801, Pubmed Id: 16048560, UMLKSK CUI: C0699889 Abstract Since receptor-binding cancer antigen expressed on SiSo cells (RCAS1) was first reported as a tumor-associated antigen of gynecologic cancer, its function and practical value as a tumor marker have been investigated in various types of carcinomas. NCI, Score=801, Pubmed Id: 15943986, UMLKSK CUI: C0699889 CONCLUSION.: RCAS1 expression may be related to tumor cell evasion of immune surveillance via induction of lymphocyte apoptosis in primary lesions and metastatic lymph nodes in uterine cervical cancer. NCI, Score=801, Pubmed Id: 15943986, UMLKSK CUI: C0699889 Association between RCAS1 expression and microenvironmental immune cell death in uterine cervical cancer.
Human	SLC28A1	9154	solute carrier family 28 (concentrative nucleoside transporter), member 1	NCI, Score=801, Pubmed Id: 15386342, UMLKSK CUI: C0699889 These 2 antisera, along with a previously characterized antibody that specifically recognizes the high-affinity Na-dependent concentrative NT, hCNT1, have been used to analyze, using a tissue array approach, NT expression in gynecologic cancers (90 ovarian, 80 endometrial and 118 uterine cervix carcinomas).
Human	ZNF35	7584	zinc finger protein 35	NCI, Score=801, Pubmed Id: 8099726, UMLKSK CUI: C0699889 Candidates for tumor-suppressor genes, APEH, D8, GNA12B, ZNF35, RARB, THRB and RAFI, were all mapped outside of the common region in uterine cervical cancer.
Human	VCAM1	7412	vascular cell adhesion molecule 1	NCI, Score=801, Pubmed Id: 9623795, UMLKSK CUI: C0699889 Increased serum concentrations of soluble vascular cell adhesion molecule-1 in uterine cervical cancer.
Human	THRB	7068	thyroid hormone receptor, beta	NCI, Score=801, Pubmed Id: 8099726, UMLKSK CUI: C0699889 Candidates for tumor-suppressor genes, APEH, D8, GNA12B, ZNF35, RARB, THRB and RAFI, were all mapped outside of the common region in uterine cervical cancer.
Human	TFF1	7031	trefoil factor 1	NCI, Score=801, Pubmed Id: 9221798, UMLKSK CUI: C0699889 Among histological types, pS2 expression was observed in 33 (92%) of the 36 G1 carcinomas, but in none of the 5 nonendometrioid carcinomas.
Human	AURKA	6790	aurora kinase A	NCI, Score=801, Pubmed Id: 14522886, UMLKSK CUI: C0699889 Differential gene expression profile in endometrioid and nonendometrioid endometrial carcinoma: STK15 is frequently overexpressed and amplified in nonendometrioid carcinomas.
Human	SMO	6608	smoothened, frizzled family receptor	NCI, Score=801, Pubmed Id: 16778829, UMLKSK CUI: C0699889 A total of 106 uterine cervical cancers and related lesions (37 squamous cell carcinomas, 23 cervical intraepithelial neoplasia (CIN) III, 10 CIN II, four CIN I, 32 normal cervical epithelia) were immunohistochemically analyzed with anti-Shh, Indian Hh (Ihh), Patched (PTCH), Smoothened (Smo), Gli-1, Gli-2, Gli-3 antibodies on paraffin blocks.
Human	HLTF	6596	helicase-like transcription factor	NCI, Score=801, Pubmed Id: 15589597, UMLKSK CUI: C0699889 METHODS: We analyzed CpG island hypermethylation in 15 genes (APC, CDH1, COX2, DAPK, FHIT, GSTP1, HLTF1, hMLH1, MGMT, p14, p16, RASSF1A, RUNX3, THBS1, and TIMP3) and its association with the methylene-tetrahydrofolate reductase (MTHFR) C677T and A1298C and the methionine synthase (MS) A2756G polymorphisms in 82 Korean women with uterine cervical cancer.
Human	RCVRN	5957	recoverin	NCI, Score=801, Pubmed Id: 10766180, UMLKSK CUI: C0699889 To elucidate the initial step of the molecular pathology of CAR, we examined the expression of recoverin and hsc 70 by reverse transcription-PCR and Western blot using cell lines of several kinds of cancers, including lung small cell carcinoma, lung adenocarcinoma, gastric cancer, pancreatic cancer, breast cancer, uterine cervical cancer, endometrial cancer, and leukemia. NCI, Score=801, Pubmed Id: 10766180, UMLKSK CUI: C0699889 To elucidate the initial step of the molecular pathology of CAR, we examined the expression of recoverin and hsc 70 by reverse transcription-PCR and Western blot using cell lines of several kinds of cancers, including lung small cell carcinoma, lung adenocarcinoma, gastric cancer, pancreatic cancer, breast cancer, uterine cervical cancer, endometrial cancer, and leukemia.
Human	CTSA	5476	cathepsin A	GENERIF, Score=983, Pubmed Id: 15785934, UMLKSK CUI: C0699889 Increased activity of beta-galactosidase in the peritoneal fluid is associated with gynecologic cancers and pelvic inflammatory disease
Human	MSH2	4436	mutS homolog 2, colon cancer, nonpolyposis type 1 (E. coli)	GENERIF, Score=983, Pubmed Id: 18674656, UMLKSK CUI: C0699889 gynecologic cancers, 88% of which (28 cases) were endometrial cancers, were diagnosed in 78.9% of the Ashkenazi families with the MSH2 A636P founder mutation and in 26.2% of the women who were at risk, with a mean age at diagnosis of 51.2 years
Human	LUM	4060	lumican	NCI, Score=801, Pubmed Id: 11956587, UMLKSK CUI: C0699889 In situ hybridization analysis revealed that lumican mRNA was not expressed in squamous or ductal epithelial cells in non-cancerous tissues, but was expressed in most cancer cells and stromal fibroblasts in uterine cervical cancer tissues. NCI, Score=801, Pubmed Id: 11956587, UMLKSK CUI: C0699889 Expression and accumulation of lumican protein in uterine cervical cancer cells at the periphery of cancer nests.
Human	IGFBP3	3486	insulin-like growth factor binding protein 3	NCI, Score=801, Pubmed Id: 9279518, UMLKSK CUI: C0699889 We assessed circulating levels of IGF-I and IGFBP-1 and IGFBP-3 in 23 patients with endometrial cancer, 11 patients with uterine cervical cancer and 27 healthy control women.
Human	IGFBP1	3484	insulin-like growth factor binding protein 1	NCI, Score=801, Pubmed Id: 9279518, UMLKSK CUI: C0699889 We assessed circulating levels of IGF-I and IGFBP-1 and IGFBP-3 in 23 patients with endometrial cancer, 11 patients with uterine cervical cancer and 27 healthy control women.
Human	HSPA8	3312	heat shock 70kDa protein 8	NCI, Score=801, Pubmed Id: 10766180, UMLKSK CUI: C0699889 To elucidate the initial step of the molecular pathology of CAR, we examined the expression of recoverin and hsc 70 by reverse transcription-PCR and Western blot using cell lines of several kinds of cancers, including lung small cell carcinoma, lung adenocarcinoma, gastric cancer, pancreatic cancer, breast cancer, uterine cervical cancer, endometrial cancer, and leukemia.
Human	HIF1A	3091	hypoxia inducible factor 1, alpha subunit (basic helix-loop-helix transcription factor)	NCI, Score=801, Pubmed Id: 12095550, UMLKSK CUI: C0699889 CONCLUSION: Our results suggest that HIF-1alpha expression may represent a useful biologic marker for hypoxia in uterine cervical cancer.
Human	GNRH2	2797	gonadotropin-releasing hormone 2	NCI, Score=801, Pubmed Id: 15598681, UMLKSK CUI: C0699889 Although a novel second form of GnRH (GnRH-II) has been reported to have an antiproliferative effect on gynecologic cancer cells, its biological mechanism remains to be elucidated.
Human	FGF1	2246	fibroblast growth factor 1 (acidic)	NCI, Score=801, Pubmed Id: 9022124, UMLKSK CUI: C0699889 The levels of basic FGF and its mRNA were significantly higher in advanced primary uterine cervical cancers, regardless of histological type. NCI, Score=801, Pubmed Id: 9022124, UMLKSK CUI: C0699889 To know the potential of growth, invasion and metastasis of uterine cervical cancer cells associated with neovascularization, the expression of basic fibroblast growth factor (FGF) and its mRNA in uterine cervical cancers and normal uterine cervices as controls were determined by enzyme-linked immunosorbent assay (ELISA) and reverse transcription-polymerase chain reaction-Southern blot (RT-PCR-SB), respectively.
Human	ETS1	2113	v-ets avian erythroblastosis virus E26 oncogene homolog 1	NCI, Score=801, Pubmed Id: 12377648, UMLKSK CUI: C0699889 Furthermore, the prognosis of the 25 patients with high ets-1 mRNA expression in uterine cervical cancers was extremely poor, while the 24-month survival rate of the other 25 patients with low ets-1 mRNA expression was 92%. NCI, Score=801, Pubmed Id: 12377648, UMLKSK CUI: C0699889 RESULTS: There was a significant correlation between microvessel counts and ets-1 gene expression levels in uterine cervical cancers. NCI, Score=801, Pubmed Id: 12377648, UMLKSK CUI: C0699889 Clinical implications of expression of ETS-1 related to angiogenesis in uterine cervical cancers. NCI, Score=801, Pubmed Id: 12377648, UMLKSK CUI: C0699889 In the tissue of 60 uterine cervical cancers, the levels of ets-1 mRNA, vascular endothelial growth factor (VEGF), basic fibroblast growth factor (bFGF), platelet-derived endothelial cell growth factor (PD-ECGF) and interleukin (IL)-8 were determined by competitive reverse transcription-polymerase chain reaction using recombinant RNA and enzyme immunoassay, and the localization and counts of microvessels were determined by immunohistochemistry. NCI, Score=801, Pubmed Id: 12377648, UMLKSK CUI: C0699889 CONCLUSIONS: ETS-1 might be a prognostic indicator as an angiogenic mediator in uterine cervical cancers.
Human	CDR2	1039	cerebellar degeneration-related protein 2, 62kDa	NCI, Score=801, Pubmed Id: 9517809, UMLKSK CUI: C0699889 The presence of the anti-Yo antibody in patients with PCD warrants an aggressive approach to diagnosis and treatment of the underlying gynecologic cancer.
Human	CDC25B	994	cell division cycle 25B	NCI, Score=801, Pubmed Id: 14559803, UMLKSK CUI: C0699889 Coordinate expression of Cdc25B and ER-alpha is frequent in low-grade endometrioid endometrial carcinoma but uncommon in high-grade endometrioid and nonendometrioid carcinomas.
Human	BRCA2	675	breast cancer 2, early onset	NCI, Score=801, Pubmed Id: 12023993, UMLKSK CUI: C0699889 BACKGROUND: Data concerning the efficacy of bilateral prophylactic oophorectomy for reducing the risk of gynecologic cancer in women with BRCA1 or BRCA2 mutations are limited.

XRefs (1)

XRef Types:

cui : 1

ToppGene Datasets:

none : 1

ToppGene Datasets	XRef Type	XRef Id	XRef	Values	Source	Top % Rank
	CUI	C0699889	Malignant Female Reproductive System Neoplasm	0		self

Gataca is supported by...