TY - JOUR
T1 - InvFEST, a database integrating information of polymorphic inversions in the human genome
AU - Martínez-Fundichely, Alexander
AU - Casillas, Sònia
AU - Egea, Raquel
AU - Ràmia, Miquel
AU - Barbadilla, Antonio
AU - Pantano, Lorena
AU - Puig, Marta
AU - Cáceres, Mario
N1 - Funding Information:
The European Research Council under the European Union Seventh Research Framework Programme [Starting Grant 243212 (INVFEST) to M.C.]; Ministerio de Asuntos Exteriores y Cooperación (Spain) [MAEC-AECI doctoral fellowship to A.M.F.]; Ministerio de Ciencia e Innovación (Spain) [BFU2007-60930 to M.C. and BFU2009-09504 to A.B.]. Funding for open access charge: European Research Council.
PY - 2014/1/1
Y1 - 2014/1/1
N2 - The newest genomic advances have uncovered an unprecedented degree of structural variation throughout genomes, with great amounts of data accumulating rapidly. Here we introduce InvFEST (http://invfestdb.uab.cat), a database combining multiple sources of information to generate a complete catalogue of non-redundant human polymorphic inversions. Due to the complexity of this type of changes and the underlying high false-positive discovery rate, it is necessary to integrate all the available data to get a reliable estimate of the real number of inversions. InvFEST automatically merges predictions into different inversions, refines the breakpoint locations, and finds associations with genes and segmental duplications. In addition, it includes data on experimental validation, population frequency, functional effects and evolutionary history. All this information is readily accessible through a complete and user-friendly web report for each inversion. In its current version, InvFEST combines information from 34 different studies and contains 1092 candidate inversions, which are categorized based on internal scores and manual curation. Therefore, InvFEST aims to represent the most reliable set of human inversions and become a central repository to share information, guide future studies and contribute to the analysis of the functional and evolutionary impact of inversions on the human genome.
AB - The newest genomic advances have uncovered an unprecedented degree of structural variation throughout genomes, with great amounts of data accumulating rapidly. Here we introduce InvFEST (http://invfestdb.uab.cat), a database combining multiple sources of information to generate a complete catalogue of non-redundant human polymorphic inversions. Due to the complexity of this type of changes and the underlying high false-positive discovery rate, it is necessary to integrate all the available data to get a reliable estimate of the real number of inversions. InvFEST automatically merges predictions into different inversions, refines the breakpoint locations, and finds associations with genes and segmental duplications. In addition, it includes data on experimental validation, population frequency, functional effects and evolutionary history. All this information is readily accessible through a complete and user-friendly web report for each inversion. In its current version, InvFEST combines information from 34 different studies and contains 1092 candidate inversions, which are categorized based on internal scores and manual curation. Therefore, InvFEST aims to represent the most reliable set of human inversions and become a central repository to share information, guide future studies and contribute to the analysis of the functional and evolutionary impact of inversions on the human genome.
UR - http://www.scopus.com/inward/record.url?scp=84891785351&partnerID=8YFLogxK
U2 - 10.1093/nar/gkt1122
DO - 10.1093/nar/gkt1122
M3 - Article
C2 - 24253300
SN - 0305-1048
VL - 42
SP - D1027-D1032
JO - Nucleic Acids Research
JF - Nucleic Acids Research
IS - D1
ER -