Literature DB >> 11179902

Integration of genome data and protein structures: prediction of protein folds, protein interactions and "molecular phenotypes" of single nucleotide polymorphisms.

S Sunyaev1, W Lathe, P Bork.   

Abstract

With the massive amount of sequence and structural data being produced, new avenues emerge for exploiting the information therein for applications in several fields. Fold distributions can be mapped onto entire genomes to learn about the nature of the protein universe and many of the interactions between proteins can now be predicted solely on the basis of the genomic context of their genes. Furthermore, by utilising the new incoming data on single nucleotide polymorphisms by mapping them onto three-dimensional structures of proteins, problems concerning population, medical and evolutionary genetics can be addressed.

Mesh:

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Year:  2001        PMID: 11179902     DOI: 10.1016/s0959-440x(00)00175-5

Source DB:  PubMed          Journal:  Curr Opin Struct Biol        ISSN: 0959-440X            Impact factor:   6.809


  13 in total

1.  LS-SNP/PDB: annotated non-synonymous SNPs mapped to Protein Data Bank structures.

Authors:  Michael Ryan; Mark Diekhans; Stephanie Lien; Yun Liu; Rachel Karchin
Journal:  Bioinformatics       Date:  2009-04-15       Impact factor: 6.937

Review 2.  The ApoE gene of Alzheimer's disease (AD).

Authors:  P K Krishnan Namboori; K V Vineeth; V Rohith; Ibnul Hassan; Lekshmi Sekhar; Akhila Sekhar; M Nidheesh
Journal:  Funct Integr Genomics       Date:  2011-07-19       Impact factor: 3.410

3.  Comprehensive analysis of missense variations in the BRCT domain of BRCA1 by structural and functional assays.

Authors:  Megan S Lee; Ruth Green; Sylvia M Marsillac; Nicolas Coquelle; R Scott Williams; Telford Yeung; Desmond Foo; D Duong Hau; Ben Hui; Alvaro N A Monteiro; J N Mark Glover
Journal:  Cancer Res       Date:  2010-06-01       Impact factor: 12.701

4.  A comprehensive in silico analysis of the functional and structural impact of SNPs in the IGF1R gene.

Authors:  S A de Alencar; Julio C D Lopes
Journal:  J Biomed Biotechnol       Date:  2010-06-23

5.  Genomic evidence that the intracellular proteins of archaeal microbes contain disulfide bonds.

Authors:  Parag Mallick; Daniel R Boutz; David Eisenberg; Todd O Yeates
Journal:  Proc Natl Acad Sci U S A       Date:  2002-07-09       Impact factor: 11.205

6.  A systematic approach to assessing the clinical significance of genetic variants.

Authors:  H Duzkale; J Shen; H McLaughlin; A Alfares; M A Kelly; T J Pugh; B H Funke; H L Rehm; M S Lebo
Journal:  Clin Genet       Date:  2013-11       Impact factor: 4.438

7.  Estimates of natural selection due to protein tertiary structure inform the ancestry of biallelic loci.

Authors:  Sang Chul Choi; Eric A Stone; Hirohisa Kishino; Jeffrey L Thorne
Journal:  Gene       Date:  2008-07-29       Impact factor: 3.688

8.  Refinement of coding SNPs in the human aryl hydrocarbon receptor gene using ISNPranker: An integrative-SNP ranking web-tool.

Authors:  Younes Aftabi; Saleh Rafei; Habib Zarredar; Amir Amiri-Sadeghan; Mohsen Akbari-Shahpar; Zahra Khoshkam; Ensiyeh Seyedrezazadeh; Majid Khalili; Faramarz Mehrnejad; Sasan Fereidouni; B Paige Lawrence
Journal:  Comput Biol Chem       Date:  2020-11-17       Impact factor: 2.877

9.  Ferroportin disease: a systematic meta-analysis of clinical and molecular findings.

Authors:  Roman Mayr; Andreas R Janecke; Melanie Schranz; William J H Griffiths; Wolfgang Vogel; Antonello Pietrangelo; Heinz Zoller
Journal:  J Hepatol       Date:  2010-07-17       Impact factor: 25.083

10.  Using structural bioinformatics to investigate the impact of non synonymous SNPs and disease mutations: scope and limitations.

Authors:  Joke Reumers; Joost Schymkowitz; Fréderic Rousseau
Journal:  BMC Bioinformatics       Date:  2009-08-27       Impact factor: 3.169

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