> Tag > Links tagged with 'neoplasm genes'

Links tagged with 'neoplasm genes'

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CCDBDatabase Content

http://crdd.osdd.net/raghava/ccdb [open in a new window]

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DNA > Databases

The Cervical Cancer gene DataBase (CCDB) is a manually curated catalog of experimentally validated genes that are thought, or are known to be involved in the different stages of cervical carcinogenesis. Each record contains details related to gene like architecture (exon-intron structure), location, function, sequences (mRNA/CDS/protein), ontology, interacting partners, homology to other eukaryotic genomes, structure and links to other public databases, thus augmenting CCDB with external data. Also, manually curated literature references have been provided to support the inclusion of the gene in the database and establish its association with cervix cancer. In addition, CCDB provides information on microRNA altered in cervical cancer as well as search facility for querying, several browse options and an online tool for sequence similarity search.

links directory index: 5
TitlePublication YearGoogle Scholar Citation Count
CCDB: a curated database of genes involved in cervix cancer20115
NAR Database Issue 2011
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tagsfemale genetic databases humans neoplasm genes uterine cervical neoplasms

CHAOS/DIALIGN WWW serverTool Content

http://dialign.gobics.de/chaos-dialign-submission [open in a new window]

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Sequence Comparison > Alignment Editing and Visualization
Sequence Comparison > Multiple Sequence Alignments

The CHAOS/DIALIGN WWW server is a multiple sequence alignment site which passes input sequences through CHAOS to create a list of local similarites. These similarities serve as anchor points, allowing DIALIGN to conduct global alignments faster. ABC can then be used for the interactive visualization of the alignment.

links directory index: 214
TitlePublication YearGoogle Scholar Citation Count
Multiple alignment of genomic sequences using CHAOS, DIALIGN and ABC200510
The CHAOS/DIALIGN WWW server for multiple alignment of genomic sequences200451
Fast and sensitive multiple alignment of large genomic sequences2003153
NAR Web Server Issue 2004NAR Web Server Issue 2005
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tagsalgorithms animals chickens computational biology dna sequence analysis genome genomics humans leukemia mice neoplasm dna neoplasm genes nucleic acid regulatory sequences rats sensitivity and specificity sequence alignment software validation stem cells tetraodontiformes zebrafish

DDPCDatabase Content

http://apps.sanbi.ac.za/ddpc/ [open in a new window]

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DNA > Databases

Dragon Database of Genes associated with Prostate Cancer (DDPC) as an integrated knowledgebase of genes experimentally verified as implicated in PC. DDPC is distinctive from other databases in that (i) it provides pre-compiled biomedical text-mining information on PC, which otherwise require tedious computational analyses, (ii) it integrates data on molecular interactions, pathways, gene ontologies, gene regulation at molecular level, predicted transcription factor binding sites on promoters of PC implicated genes and transcription factors that correspond to these binding sites and (iii) it contains DrugBank data on drugs associated with PC.

links directory index: 4
TitlePublication YearGoogle Scholar Citation Count
DDPC: Dragon Database of Genes associated with Prostate Cancer20114
NAR Database Issue 2011
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tagsdata mining genetic databases humans knowledge bases male neoplasm genes prostatic neoplasms

DIALIGNTool Content

http://bibiserv.techfak.uni-bielefeld.de/dialign/ [open in a new window]

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Sequence Comparison > Multiple Sequence Alignments

Multiple alignment program which assembles a global sequence alignment from gap-free local pairwise alignments. This method could be especially useful when comparing large sequences that have only local similarities.

links directory index: 1034
TitlePublication YearGoogle Scholar Citation Count
DIALIGN: multiple DNA and protein sequence alignment at BiBiServ2004176
Fast and sensitive multiple alignment of large genomic sequences2003153
DIALIGN 2: improvement of the segment-to-segment approach to multiple sequence alignment1999705
NAR Web Server Issue 2004
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tagsalgorithms amino acid sequence amino acid sequence homology animals chickens computational biology dna sequence analysis genome humans leukemia mice molecular sequence data neoplasm dna neoplasm genes nucleic acid regulatory sequences protein sequence analysis proteins rats sensitivity and specificity sequence alignment software validation stem cells tetraodontiformes zebrafish

MIPSDatabase Content

http://www.helmholtz-muenchen.de/en/ibis [open in a new window]

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Model Organisms > General Resources
Model Organisms > Other Organisms
Model Organisms > Plants
Model Organisms > Yeast
Protein > Networks & Interactions, Pathways and Enzymes
Sequence Comparison > Comparative Genomics

Munich Information Centre for Protein Sequences projects include: fungal genome analysis, plant genome bioinformatics, structural genomics, proteomics and genome annotation. Projects and databases include: CYGD, MNCDB, NGFN, MPPI, SIMAP, QUIPOS, MATDB, MOsDB, SPUTNIK, and PEDANT.

links directory index: 703
TitlePublication YearGoogle Scholar Citation Count
MIPS: curated databases and comprehensive secondary data resources in 201020119
MIPS: analysis and annotation of proteins from whole genomes2004422
MIPS Arabidopsis thaliana Database (MAtDB): an integrated biological knowledge resource for plant genomics200487
MOsDB: an integrated information resource for rice genomics200317
Sputnik: a database platform for comparative plant genomics200350
The PEDANT genome database2003118
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external linksLink on Wikipedia
tagsanimals arabidopsis arabidopsis proteins biological models complementary dna computational biology data mining dna transposable elements expressed sequence tags fungi gene duplication genetic databases genome genomics humans information storage and retrieval internet metabolomics mice micrornas neoplasm genes nucleic acid databases nucleic acid sequence homology oryza sativa phenotype plant genes plant genome protein binding protein databases protein interaction mapping protein sequence analysis proteins proteomics saccharomyces cerevisiae proteins sequence homology software systems integration user-computer interface

MIPSDatabase Content

http://mips.helmholtz-muenchen.de [open in a new window]

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Protein > Databases

The Munich Information Center for Protein Sequences (MIPS) provides annotated collections of biological data. High-quality reference resources include Saccharomyces cerevisiae, Neurospora crassa and Arabidopsis thaliana genome databases as well as several protein interaction data sets (MPACT, MPPI and CORUM). PhenomiR, the database on microRNA-related phenotypes, and MIPS PlantsDB for integrative and comparative plant genome research. The interlinked resources SIMAP and PEDANT provide homology relationships as well as up-to-date and consistent annotation for 38,000,000 protein sequences. PPLIPS and CCancer are versatile tools for proteomics and functional genomics interfacing to a database of compilations from gene lists extracted from literature. A novel literature-mining tool, EXCERBT, gives access to structured information on classified relations between genes, proteins, phenotypes and diseases extracted from Medline abstracts by semantic analysis.

links directory index: 9
TitlePublication YearGoogle Scholar Citation Count
MIPS: curated databases and comprehensive secondary data resources in 201020119
NAR Database Issue 2011
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external linksLink on Wikipedia
tagsdata mining genetic databases genomics metabolomics micrornas neoplasm genes phenotype plant genome protein databases protein sequence analysis proteomics systems integration

Network of Cancer GenesDatabase Content

http://bio.ifom-ieo-campus.it/ncg2 [open in a new window]

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Human Genome > Databases

The Network of Cancer Genes (NCG) collects and integrates data on 736 human genes that are mutated in various types of cancer. For each gene, NCG provides information on duplicability, orthology, evolutionary appearance and topological properties of the encoded protein in a comprehensive version of the human protein-protein interaction network. NCG also stores information on all primary interactors of cancer proteins, thus providing a complete overview of 5357 proteins that constitute direct and indirect determinants of human cancer.

links directory index: 10
TitlePublication YearGoogle Scholar Citation Count
Network of Cancer Genes: a web resource to analyze duplicability, orthology and network properties of cancer genes201010
NAR Database Issue 2010
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tagsanimals computational biology gene expression profiling gene regulatory networks genetic databases humans mutation neoplasm genes neoplasms neoplastic gene expression regulation nucleic acid databases plant genome

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