Computational prediction of cancer-gene function

scientific article published on 14 December 2006

Computational prediction of cancer-gene function is …
instance of (P31):
scholarly articleQ13442814

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P356DOI10.1038/NRC2036
P8608Fatcat IDrelease_geazxfobsnelbgsedeqgb6d3e4
P698PubMed publication ID17167517
P5875ResearchGate publication ID6631510

P50authorGary D. BaderQ37393655
Pingzhao HuQ39652071
Andrew EmiliQ64126987
P2093author name stringDennis A Wigle
P2860cites workThe Hallmarks of CancerQ221226
A physical and functional map of the human TNF-alpha/NF-kappa B signal transduction pathwayQ21735927
Towards a proteome-scale map of the human protein–protein interaction networkQ21735930
The Shwachman-Diamond SBDS protein localizes to the nucleolusQ24300969
Core transcriptional regulatory circuitry in human embryonic stem cellsQ24322016
A human protein-protein interaction network: a resource for annotating the proteomeQ24324450
Prediction of functional modules based on comparative genome analysis and Gene Ontology applicationQ24527323
Gapped BLAST and PSI-BLAST: a new generation of protein database search programsQ24545170
DIP, the Database of Interacting Proteins: a research tool for studying cellular networks of protein interactionsQ24548456
IntAct: an open source molecular interaction databaseQ24600582
Stromal effects on mammary gland development and breast cancerQ24645558
A census of human cancer genesQ24647081
Global topological features of cancer proteins in the human interactomeQ24672981
STRING: a database of predicted functional associations between proteinsQ24681946
Clustering proteins from interaction networks for the prediction of cellular functionsQ24794683
The functional landscape of mouse gene expressionQ24794985
Identifying protein function--a call for community actionQ24800079
AVID: an integrative framework for discovering functional relationships among proteinsQ24813007
BABELOMICS: a suite of web tools for functional annotation and analysis of groups of genes in high-throughput experiments.Q24813075
Pathguide: a pathway resource listQ25256662
The KEGG resource for deciphering the genomeQ27860687
Gene expression profiling predicts clinical outcome of breast cancerQ27860732
The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003Q27860747
Network biology: understanding the cell's functional organizationQ27861027
The Shwachman-Bodian-Diamond syndrome protein family is involved in RNA metabolismQ27933622
Large-scale prediction of Saccharomyces cerevisiae gene function using overlapping transcriptional clustersQ27936646
Assembly of Cell Regulatory Systems Through Protein Interaction DomainsQ28155799
Development of human protein reference database as an initial platform for approaching systems biology in humansQ28206967
High-throughput mapping of a dynamic signaling network in mammalian cellsQ28239249
Cancer genes and the pathways they controlQ28275089
Human homolog of patched, a candidate gene for the basal cell nevus syndromeQ28281033
Cell-cycle checkpoints and cancerQ28293996
Global survey of organ and organelle protein expression in mouse: combined proteomic and transcriptomic profilingQ28588350
BiNGO: a Cytoscape plugin to assess overrepresentation of gene ontology categories in biological networksQ29547427
A gene-coexpression network for global discovery of conserved genetic modulesQ29614451
MIPS: a database for genomes and protein sequencesQ29614501
BIND: the Biomolecular Interaction Network DatabaseQ29616859
A general framework for weighted gene co-expression network analysisQ29617580
MINT: a Molecular INTeraction databaseQ29618559
GenMAPP, a new tool for viewing and analyzing microarray data on biological pathwaysQ29618720
A network of protein-protein interactions in yeastQ30004209
Complete cloning of the duchenne muscular dystrophy (DMD) cDNA and preliminary genomic organization of the DMD gene in normal and affected individualsQ30050310
Relating whole-genome expression data with protein-protein interactionsQ30669147
Learning gene functional classifications from multiple data typesQ30693068
Systematic learning of gene functional classes from DNA array expression data by using multilayer perceptronsQ30745866
A Bayesian framework for combining heterogeneous data sources for gene function prediction (in Saccharomyces cerevisiae).Q30806988
Predicting protein function from protein/protein interaction data: a probabilistic approachQ30811144
Finding function: evaluation methods for functional genomic dataQ30820459
Global protein function annotation through mining genome-scale data in yeast Saccharomyces cerevisiaeQ30977956
Chronic myeloid leukemiaQ33603077
Mutations in SBDS are associated with Shwachman-Diamond syndromeQ33963285
Intrinsic errors in genome annotationQ34085839
The genetics and genomics of cancerQ34180336
WormBase: a multi-species resource for nematode biology and genomicsQ34284591
Mutations of the SBDS gene are present in most patients with Shwachman-Diamond syndromeQ34337305
Online predicted human interaction databaseQ34385609
Biological networksQ35119735
Sequence-based cancer genomics: progress, lessons and opportunitiesQ35140822
Cancer susceptibility in the mouse: genetics, biology and implications for human cancerQ35209979
Analyzing protein function on a genomic scale: the importance of gold-standard positives and negatives for network predictionQ35903266
Systems biology for cancerQ35988686
Interactome modelingQ36069223
Integrative analysis of the cancer transcriptomeQ36141641
From signatures to models: understanding cancer using microarraysQ36141647
Forensic genetics and ethical, legal and social implications beyond the clinicQ36503211
Graph-based methods for analysing networks in cell biologyQ36552759
Whole-genome annotation by using evidence integration in functional-linkage networksQ36852724
Hierarchical multi-label prediction of gene functionQ38519155
Genome-wide screening for complete genetic loss in prostate cancer by comparative hybridization onto cDNA microarraysQ40667885
Whole-proteome prediction of protein function via graph-theoretic analysis of interaction mapsQ42659943
Exploiting indirect neighbours and topological weight to predict protein function from protein-protein interactionsQ42683787
Systematic identification of functional orthologs based on protein network comparisonQ43252162
Detection of functional modules from protein interaction networks.Q47285412
Global protein function prediction from protein-protein interaction networksQ47921995
Learning kernels from biological networks by maximizing entropyQ48533625
Edge-count probabilities for the identification of local protein communities and their organizationQ57385264
Protein function prediction using the Protein Link EXplorer (PLEX)Q59447190
High frequency of fusion transcripts of exon 11 and exon 4/5 in AF-4 gene is observed in cord blood, as well as leukemic cells from infant leukemia patients with t(4;11)(q21;q23)Q77299338
Integrated global profiling of cancerQ80402791
A probabilistic functional network of yeast genesQ81067438
CFinder: locating cliques and overlapping modules in biological networksQ82534265
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P433issue1
P407language of work or nameEnglishQ1860
P304page(s)23-34
P577publication date2006-12-14
P13046publication type of scholarly workreview articleQ7318358
P1433published inNature Reviews CancerQ641657
P1476titleComputational prediction of cancer-gene function
P478volume7

Reverse relations

cites work (P2860)
Q34761291A Role of TGFß1 Dependent 14-3-3σ Phosphorylation at Ser69 and Ser74 in the Regulation of Gene Transcription, Stemness and Radioresistance
Q35990752A Topology-Based Metric for Measuring Term Similarity in the Gene Ontology
Q38442252A machine-learned computational functional genomics-based approach to drug classification
Q60915322A model to predict the function of hypothetical proteins through a nine-point classification scoring schema
Q51744595Adhesion, proliferation, and apoptosis in different molecular portraits of breast cancer treated with silver nanoparticles and its pathway-network analysis
Q41356904An improved hypergeometric probability method for identification of functionally linked proteins using phylogenetic profiles
Q28476427Analysis of kinase gene expression patterns across 5681 human tissue samples reveals functional genomic taxonomy of the kinome
Q36976745Annotating proteins with generalized functional linkages
Q35214509Biochemical functional predictions for protein structures of unknown or uncertain function
Q37153533Cancer as a system failure
Q26851744Candidate gene association studies: a comprehensive guide to useful in silico tools
Q40523625Computational functional genomics based analysis of pain-relevant micro-RNAs.
Q30989707Development of Bioinformatics Pipeline for Analyzing Clinical Pediatric NGS Data.
Q30493496Extracting consistent knowledge from highly inconsistent cancer gene data sources
Q38487175Functional genomics suggest neurogenesis in the adult human olfactory bulb
Q28078745Future paradigms for precision oncology
Q37468623Gene expression profiling for the investigation of soft tissue sarcoma pathogenesis and the identification of diagnostic, prognostic, and predictive biomarkers
Q37754827Immunoinformatics: an overview of computational tools and techniques for understanding immune function
Q38022502Inferring gene functions through dissection of relevance networks: interleaving the intra- and inter-species views
Q36393263Inflammation and breast cancer. Inflammatory component of mammary carcinogenesis in ErbB2 transgenic mice
Q28744621Integrative computational biology for cancer research
Q33734760Involvement of Chromatin Remodeling Genes and the Rho GTPases RhoB and CDC42 in Ovarian Clear Cell Carcinoma.
Q38089257Lost in translation: five grand challenges for proteomic biomarker discovery
Q58110141Machine Learning in Human Olfactory Research.
Q82774858Nine steps to proteomic wisdom: A practical guide to using protein‐protein interaction networks and molecular pathways as a framework for interpreting disease proteomic profiles
Q34059056Parameter adaptations during phenotype transitions in progressive diseases.
Q28535030Parameter trajectory analysis to identify treatment effects of pharmacological interventions
Q30481763Predicting cancer involvement of genes from heterogeneous data
Q37014089Predicting protein function from sequence and structure
Q42822627Prioritization of candidate cancer genes--an aid to oncogenomic studies
Q31074800Process Pharmacology: A Pharmacological Data Science Approach to Drug Development and Therapy
Q45945654Protein complexes, big data, machine learning and integrative proteomics: lessons learned over a decade of systematic analysis of protein interaction networks.
Q33751211RIDDLE: reflective diffusion and local extension reveal functional associations for unannotated gene sets via proximity in a gene network
Q43811083Sequential linear neighborhood propagation for semi-supervised protein function prediction
Q21145302Systematically differentiating functions for alternatively spliced isoforms through integrating RNA-seq data
Q36841980The fibromatosis signature defines a robust stromal response in breast carcinoma
Q33417875Topological and organizational properties of the products of house-keeping and tissue-specific genes in protein-protein interaction networks
Q33847103Unveiling protein functions through the dynamics of the interaction network
Q30670257Using biological pathway data with paxtools
Q39096958What do all the (human) micro-RNAs do?

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