4.6 Review

Computational approaches to disease-gene prediction: rationale, classification and successes

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Biochemistry & Molecular Biology

An atlas of tissue-specific conserved coexpression for functional annotation and disease gene prediction

Rosario Michael Piro et al.

EUROPEAN JOURNAL OF HUMAN GENETICS (2011)

Article Biochemistry & Molecular Biology

A probabilistic disease-gene finder for personal genomes

Mark Yandell et al.

GENOME RESEARCH (2011)

Article Biochemistry & Molecular Biology

Prioritizing candidate disease genes by network-based boosting of genome-wide association data

Insuk Lee et al.

GENOME RESEARCH (2011)

Article Endocrinology & Metabolism

Identification of genes for bone mineral density variation by computational disease gene identification strategy

Gloria H. Y. Li et al.

JOURNAL OF BONE AND MINERAL METABOLISM (2011)

Article Multidisciplinary Sciences

Deep sequencing reveals 50 novel genes for recessive cognitive disorders

Hossein Najmabadi et al.

NATURE (2011)

Review Genetics & Heredity

Network medicine: a network-based approach to human disease

Albert-Laszlo Barabasi et al.

NATURE REVIEWS GENETICS (2011)

Article Biochemical Research Methods

Candidate gene prioritization based on spatially mapped gene expression: an application to XLMR

Rosario M. Piro et al.

BIOINFORMATICS (2010)

Article Biochemical Research Methods

The power of protein interaction networks for associating genes with diseases

Saket Navlakha et al.

BIOINFORMATICS (2010)

Article Biochemical Research Methods

Genome-wide inferring gene-phenotype relationship by walking on the heterogeneous network

Yongjin Li et al.

BIOINFORMATICS (2010)

Article Mathematical & Computational Biology

Prioritization of disease microRNAs through a human phenome-microRNAome network

Qinghua Jiang et al.

BMC SYSTEMS BIOLOGY (2010)

Review Biochemical Research Methods

Advances in translational bioinformatics: computational approaches for the hunting of disease genes

Maricel G. Kann

BRIEFINGS IN BIOINFORMATICS (2010)

Article Biotechnology & Applied Microbiology

Gene-centered regulatory networks

H. Efsun Arda et al.

BRIEFINGS IN FUNCTIONAL GENOMICS (2010)

Article Genetics & Heredity

Syndrome to Gene (S2G): In-Silico Identification of Candidate Genes for Human Diseases

Avitan Gefen et al.

HUMAN MUTATION (2010)

Article Multidisciplinary Sciences

A map of human genome variation from population-scale sequencing

David Altshuler et al.

NATURE (2010)

Review Medicine, General & Internal

Genomewide Association Studies and Assessment of the Risk of Disease

Teri A. Manolio

NEW ENGLAND JOURNAL OF MEDICINE (2010)

Article Biochemistry & Molecular Biology

Database resources of the National Center for Biotechnology Information

Eric W. Sayers et al.

NUCLEIC ACIDS RESEARCH (2010)

Article Biochemical Research Methods

Associating Genes and Protein Complexes with Disease via Network Propagation

Oron Vanunu et al.

PLOS COMPUTATIONAL BIOLOGY (2010)

Article Biotechnology & Applied Microbiology

Annotating the human genome with Disease Ontology

John D. Osborne et al.

BMC GENOMICS (2009)

Review Biochemistry & Molecular Biology

Lessons learnt from large-scale exon re-sequencing of the X chromosome

F. Lucy Raymond et al.

HUMAN MOLECULAR GENETICS (2009)

Review Genetics & Heredity

Human genetic variation and its contribution to complex traits

Kelly A. Frazer et al.

NATURE REVIEWS GENETICS (2009)

Review Genetics & Heredity

RNA-Seq: a revolutionary tool for transcriptomics

Zhong Wang et al.

NATURE REVIEWS GENETICS (2009)

Review Neurosciences

INNOVATION The Allen Brain Atlas: 5 years and beyond

Allan R. Jones et al.

NATURE REVIEWS NEUROSCIENCE (2009)

Article Biochemistry & Molecular Biology

McKusick's Online Mendelian Inheritance in Man (OMIM®)

Joanna Amberger et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Biochemistry & Molecular Biology

Human Protein Reference Database-2009 update

T. S. Keshava Prasad et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Biochemistry & Molecular Biology

NCBI GEO: archive for high-throughput functional genomic data

Tanya Barrett et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Biochemistry & Molecular Biology

ToppGene Suite for gene list enrichment analysis and candidate gene prioritization

Jing Chen et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Biochemistry & Molecular Biology

STRING 8-a global view on proteins and their functional interactions in 630 organisms

Lars J. Jensen et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Biochemistry & Molecular Biology

InterPro: the integrative protein signature database

Sarah Hunter et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Multidisciplinary Sciences

Network Analysis of Differential Expression for the Identification of Disease-Causing Genes

Daniela Nitsch et al.

PLOS ONE (2009)

Review Genetics & Heredity

Linking genes to diseases: it's all in the data

Nicki Tiffin et al.

GENOME MEDICINE (2009)

Article Genetics & Heredity

Walking the interactome for prioritization of candidate disease genes

Sebastian Koehler et al.

AMERICAN JOURNAL OF HUMAN GENETICS (2008)

Article Genetics & Heredity

The Human Phenotype Ontology: A Tool for Annotating and Analyzing Human Hereditary Disease

Peter N. Robinson et al.

AMERICAN JOURNAL OF HUMAN GENETICS (2008)

Article Biochemical Research Methods

Identifying gene-disease associations using centrality on a literature mined gene-interaction network

Arzucan Oezguer et al.

BIOINFORMATICS (2008)

Article Genetics & Heredity

Prediction of osteoporosis candidate genes by computational disease-gene identification strategy

Qing-Yang Huang et al.

JOURNAL OF HUMAN GENETICS (2008)

Article Biochemistry & Molecular Biology

Network-based global inference of human disease genes

Xuebing Wu et al.

MOLECULAR SYSTEMS BIOLOGY (2008)

Review Genetics & Heredity

Genome-wide association studies for complex traits: consensus, uncertainty and challenges

Mark I. McCarthy et al.

NATURE REVIEWS GENETICS (2008)

Article Biochemistry & Molecular Biology

ENDEAVOUR update: a web resource for gene prioritization in multiple species

Leon-Charles Tranchevent et al.

NUCLEIC ACIDS RESEARCH (2008)

Article Biochemistry & Molecular Biology

Prioritization of candidate cancer genes-an aid to oncogenomic studies

Simon J. Furney et al.

NUCLEIC ACIDS RESEARCH (2008)

Article Multidisciplinary Sciences

Genes to Diseases (G2D) Computational Method to Identify Asthma Candidate Genes

Karine Tremblay et al.

PLOS ONE (2008)

Article Biochemistry & Molecular Biology

An integrated approach to inferring gene-disease associations in humans

Predrag Radivojac et al.

PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2008)

Article Genetics & Heredity

Phenome connections

Martin Oti et al.

TRENDS IN GENETICS (2008)

Review Genetics & Heredity

The impact of next-generation sequencing technology on genetics

Elaine R. Mardis

TRENDS IN GENETICS (2008)

Article Biochemical Research Methods

Prediction of human disease genes by human-mouse conserved coexpression analysis

Ugo Ala et al.

PLOS COMPUTATIONAL BIOLOGY (2008)

Article Biochemistry & Molecular Biology

KEGG for linking genomes to life and the environment

Minoru Kanehisa et al.

NUCLEIC ACIDS RESEARCH (2008)

Article Biochemistry & Molecular Biology

Towards completion of the Earth's proteome

Carolina Perez-Iratxeta et al.

EMBO REPORTS (2007)

Review Biochemistry & Molecular Biology

Downstream intronic splicing enhancers

Julian P. Venables

FEBS LETTERS (2007)

Article Biochemistry & Molecular Biology

Update of the G2D tool for prioritization of gene candidates to inherited diseases

Carolina Perez-Iratxeta et al.

NUCLEIC ACIDS RESEARCH (2007)

Article Biochemical Research Methods

A computational system to select candidate genes for complex human traits

Kyle J. Gaulton et al.

BIOINFORMATICS (2007)

Article Biotechnology & Applied Microbiology

A human phenome-interactome network of protein complexes implicated in genetic disorders

Kasper Lage et al.

NATURE BIOTECHNOLOGY (2007)

Article Multidisciplinary Sciences

Genome-wide atlas of gene expression in the adult mouse brain

Ed S. Lein et al.

NATURE (2007)

Article Biotechnology & Applied Microbiology

Reactome: a knowledge base of biologic pathways and processes

Imre Vastrik et al.

GENOME BIOLOGY (2007)

Review Genetics & Heredity

The modular nature of genetic diseases

M. Oti et al.

CLINICAL GENETICS (2007)

Article Biochemistry & Molecular Biology

Exploring candidate genes for human brain diseases from a brain-specific gene network

Bing Liu et al.

BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS (2006)

Article Biochemistry & Molecular Biology

Analysis of protein sequence and interaction data for candidate disease gene prediction

Richard A. George et al.

NUCLEIC ACIDS RESEARCH (2006)

Article Genetics & Heredity

Predicting disease genes using protein-protein interactions

M. Oti et al.

JOURNAL OF MEDICAL GENETICS (2006)

Article Biochemistry & Molecular Biology

TOM: a web-based integrated approach for identification of candidate disease genes

Simona Rossi et al.

NUCLEIC ACIDS RESEARCH (2006)

Article Genetics & Heredity

Reconstruction of a functional human gene network, with an application for prioritizing positional candidate genes

Lude Franke et al.

AMERICAN JOURNAL OF HUMAN GENETICS (2006)

Article Biochemistry & Molecular Biology

A text-mining analysis of the human phenome

MA van Driel et al.

EUROPEAN JOURNAL OF HUMAN GENETICS (2006)

Article Biotechnology & Applied Microbiology

Gene prioritization through genomic data fusion

S Aerts et al.

NATURE BIOTECHNOLOGY (2006)

Review Genetics & Heredity

Genetic medicines: treatment strategies for hereditary disorders

TP O'Connor et al.

NATURE REVIEWS GENETICS (2006)

Article Biochemical Research Methods

SUSPECTS: enabling fast and effective prioritization of positional candidates

EA Adie et al.

BIOINFORMATICS (2006)

Article Genetics & Heredity

Novel amino acid substitution in the Y-position of collagen type II causes spondyloepimetaphyseal dysplasia congenita

J Sulko et al.

AMERICAN JOURNAL OF MEDICAL GENETICS PART A (2005)

Article Biochemistry & Molecular Biology

GeneSeeker: extraction and integration of human disease-related information from web-based genetic databases

MA van Driel et al.

NUCLEIC ACIDS RESEARCH (2005)

Article Biochemistry & Molecular Biology

GFINDer: genetic disease and phenotype location statistical analysis and mining of dynamically annotated gene lists

M Masseroli et al.

NUCLEIC ACIDS RESEARCH (2005)

Article Genetics & Heredity

Evolutionary significance of gene expression divergence

IK Jordan et al.

Article Biotechnology & Applied Microbiology

The Mammalian Phenotype Ontology as a tool for annotating, analyzing and comparing phenotypic information

CL Smith et al.

GENOME BIOLOGY (2005)

Article Biochemistry & Molecular Biology

Integration of text- and data-mining using ontologies successfully selects disease gene candidates

N Tiffin et al.

NUCLEIC ACIDS RESEARCH (2005)

Review Genetics & Heredity

From syndrome families to functional genomics

HG Brunner et al.

NATURE REVIEWS GENETICS (2004)

Article Biochemistry & Molecular Biology

Similarities and differences in genome-wide expression data of six organisms

S Bergmann et al.

PLOS BIOLOGY (2004)

Article Biochemistry & Molecular Biology

The Unified Medical Language System (UMLS): integrating biomedical terminology

O Bodenreider

NUCLEIC ACIDS RESEARCH (2004)

Article Biochemistry & Molecular Biology

Genome-wide identification of genes likely to be involved in human genetic disease

N López-Bigas et al.

NUCLEIC ACIDS RESEARCH (2004)

Article Biochemistry & Molecular Biology

eVOC: A controlled vocabulary for unifying gene expression data

J Kelso et al.

GENOME RESEARCH (2003)

Article Multidisciplinary Sciences

Identification of a gene causing human cytochrome c oxidase deficiency by integrative genomics

VK Mootha et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2003)

Article Biotechnology & Applied Microbiology

POCUS: mining genomic sequence annotation to predict disease genes

FS Turner et al.

GENOME BIOLOGY (2003)

Article Biochemistry & Molecular Biology

A new web-based data mining tool for the identification of candidate genes for human genetic disorders

MA van Driel et al.

EUROPEAN JOURNAL OF HUMAN GENETICS (2003)

Review Multidisciplinary Sciences

Finding genes that underlie complex traits

AM Glazier et al.

SCIENCE (2002)

Article Biochemical Research Methods

A similarity-based method for genome-wide prediction of disease-relevant human genes

J Freudenberg et al.

BIOINFORMATICS (2002)

Review Genetics & Heredity

Candidate-gene approaches for studying complex genetic traits: practical considerations

HK Tabor et al.

NATURE REVIEWS GENETICS (2002)

Article Biochemistry & Molecular Biology

Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders

A Hamosh et al.

NUCLEIC ACIDS RESEARCH (2002)

Review Genetics & Heredity

Computational analysis of microarray data

J Quackenbush

NATURE REVIEWS GENETICS (2001)

Article Genetics & Heredity

Identification of the α-aminoadipic semialdehyde synthase gene, which is defective in familial hyperlysinemia

KA Sacksteder et al.

AMERICAN JOURNAL OF HUMAN GENETICS (2000)