Literature DB >> 21423179

Systematic documentation and analysis of human genetic variation in hemoglobinopathies using the microattribution approach.

Belinda Giardine1, Joseph Borg, Douglas R Higgs, Kenneth R Peterson, Sjaak Philipsen, Donna Maglott, Belinda K Singleton, David J Anstee, A Nazli Basak, Barnaby Clark, Flavia C Costa, Paula Faustino, Halyna Fedosyuk, Alex E Felice, Alain Francina, Renzo Galanello, Monica V E Gallivan, Marianthi Georgitsi, Richard J Gibbons, Piero C Giordano, Cornelis L Harteveld, James D Hoyer, Martin Jarvis, Philippe Joly, Emmanuel Kanavakis, Panagoula Kollia, Stephan Menzel, Webb Miller, Kamran Moradkhani, John Old, Adamantia Papachatzopoulou, Manoussos N Papadakis, Petros Papadopoulos, Sonja Pavlovic, Lucia Perseu, Milena Radmilovic, Cathy Riemer, Stefania Satta, Iris Schrijver, Maja Stojiljkovic, Swee Lay Thein, Jan Traeger-Synodinos, Ray Tully, Takahito Wada, John S Waye, Claudia Wiemann, Branka Zukic, David H K Chui, Henri Wajcman, Ross C Hardison, George P Patrinos.   

Abstract

We developed a series of interrelated locus-specific databases to store all published and unpublished genetic variation related to hemoglobinopathies and thalassemia and implemented microattribution to encourage submission of unpublished observations of genetic variation to these public repositories. A total of 1,941 unique genetic variants in 37 genes, encoding globins and other erythroid proteins, are currently documented in these databases, with reciprocal attribution of microcitations to data contributors. Our project provides the first example of implementing microattribution to incentivise submission of all known genetic variation in a defined system. It has demonstrably increased the reporting of human variants, leading to a comprehensive online resource for systematically describing human genetic variation in the globin genes and other genes contributing to hemoglobinopathies and thalassemias. The principles established here will serve as a model for other systems and for the analysis of other common and/or complex human genetic diseases.

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Year:  2011        PMID: 21423179      PMCID: PMC3878152          DOI: 10.1038/ng.785

Source DB:  PubMed          Journal:  Nat Genet        ISSN: 1061-4036            Impact factor:   38.330


  30 in total

1.  Flow cytometry of erythropoiesis in culture: bivariate profiles of fetal and adult hemoglobin.

Authors:  R M Böhmer
Journal:  Methods Cell Biol       Date:  2001       Impact factor: 1.441

2.  HbVar: A relational database of human hemoglobin variants and thalassemia mutations at the globin gene server.

Authors:  Ross C Hardison; David H K Chui; Belinda Giardine; Cathy Riemer; George P Patrinos; Nicholas Anagnou; Webb Miller; Henri Wajcman
Journal:  Hum Mutat       Date:  2002-03       Impact factor: 4.878

3.  Improvements in the HbVar database of human hemoglobin variants and thalassemia mutations for population and sequence variation studies.

Authors:  George P Patrinos; Belinda Giardine; Cathy Riemer; Webb Miller; David H K Chui; Nicholas P Anagnou; Henri Wajcman; Ross C Hardison
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

4.  Identification of acquired somatic mutations in the gene encoding chromatin-remodeling factor ATRX in the alpha-thalassemia myelodysplasia syndrome (ATMDS).

Authors:  Richard J Gibbons; Andrea Pellagatti; David Garrick; William G Wood; Nicola Malik; Helena Ayyub; Cordelia Langford; Jacqueline Boultwood; James S Wainscoat; Douglas R Higgs
Journal:  Nat Genet       Date:  2003-08       Impact factor: 38.330

5.  Recording human globin gene variation.

Authors:  George P Patrinos; Henri Wajcman
Journal:  Hemoglobin       Date:  2004-05       Impact factor: 0.849

6.  Genome architecture of the human beta-globin locus affects developmental regulation of gene expression.

Authors:  Susanna Harju; Patrick A Navas; George Stamatoyannopoulos; Kenneth R Peterson
Journal:  Mol Cell Biol       Date:  2005-10       Impact factor: 4.272

7.  X-linked thrombocytopenia with thalassemia from a mutation in the amino finger of GATA-1 affecting DNA binding rather than FOG-1 interaction.

Authors:  Channing Yu; Kathy K Niakan; Mark Matsushita; George Stamatoyannopoulos; Stuart H Orkin; Wendy H Raskind
Journal:  Blood       Date:  2002-09-15       Impact factor: 22.113

8.  Mutations in a putative global transcriptional regulator cause X-linked mental retardation with alpha-thalassemia (ATR-X syndrome).

Authors:  R J Gibbons; D J Picketts; L Villard; D R Higgs
Journal:  Cell       Date:  1995-03-24       Impact factor: 41.582

9.  Use of yeast artificial chromosomes (YACs) in studies of mammalian development: production of beta-globin locus YAC mice carrying human globin developmental mutants.

Authors:  K R Peterson; Q L Li; C H Clegg; T Furukawa; P A Navas; E J Norton; T G Kimbrough; G Stamatoyannopoulos
Journal:  Proc Natl Acad Sci U S A       Date:  1995-06-06       Impact factor: 11.205

10.  Flow cytometric analysis of fetal hemoglobin in erythroid precursors of beta-thalassemia.

Authors:  I Amoyal; E Fibach
Journal:  Clin Lab Haematol       Date:  2004-06
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  64 in total

1.  On not reinventing the wheel.

Authors: 
Journal:  Nat Genet       Date:  2012-02-27       Impact factor: 38.330

2.  Developing predictive molecular maps of human disease through community-based modeling.

Authors:  Jonathan M J Derry; Lara M Mangravite; Christine Suver; Matthew D Furia; David Henderson; Xavier Schildwachter; Brian Bot; Jonathan Izant; Solveig K Sieberts; Michael R Kellen; Stephen H Friend
Journal:  Nat Genet       Date:  2012-01-27       Impact factor: 38.330

3.  Erythroid phenotypes associated with KLF1 mutations.

Authors:  Joseph Borg; George P Patrinos; Alex E Felice; Sjaak Philipsen
Journal:  Haematologica       Date:  2011-05       Impact factor: 9.941

4.  The value of data.

Authors:  Barend Mons; Herman van Haagen; Christine Chichester; Peter-Bram 't Hoen; Johan T den Dunnen; Gertjan van Ommen; Erik van Mulligen; Bharat Singh; Rob Hooft; Marco Roos; Joel Hammond; Bruce Kiesel; Belinda Giardine; Jan Velterop; Paul Groth; Erik Schultes
Journal:  Nat Genet       Date:  2011-03-29       Impact factor: 38.330

5.  Clarity and claims in variation/mutation databasing.

Authors:  Raymond Dalgleish; William S Oetting; Arleen D Auerbach; Jacques S Beckmann; Anne Cambon-Thomsen; Andrew Devereau; Marc S Greenblatt; George P Patrinos; Graham R Taylor; Mauno Vihinen; Anthony J Brookes
Journal:  Nat Biotechnol       Date:  2011-09-08       Impact factor: 54.908

6.  The molecular basis of α-thalassemia.

Authors:  Douglas R Higgs
Journal:  Cold Spring Harb Perspect Med       Date:  2013-01-01       Impact factor: 6.915

Review 7.  Hemoglobin variants: biochemical properties and clinical correlates.

Authors:  Christopher S Thom; Claire F Dickson; David A Gell; Mitchell J Weiss
Journal:  Cold Spring Harb Perspect Med       Date:  2013-03-01       Impact factor: 6.915

Review 8.  EKLF/KLF1, a tissue-restricted integrator of transcriptional control, chromatin remodeling, and lineage determination.

Authors:  Yvette Y Yien; James J Bieker
Journal:  Mol Cell Biol       Date:  2012-10-22       Impact factor: 4.272

9.  Impact of mutations on the allosteric conformational equilibrium.

Authors:  Patrick Weinkam; Yao Chi Chen; Jaume Pons; Andrej Sali
Journal:  J Mol Biol       Date:  2012-12-07       Impact factor: 5.469

10.  The InSiGHT database: utilizing 100 years of insights into Lynch syndrome.

Authors:  J P Plazzer; R H Sijmons; M O Woods; P Peltomäki; B Thompson; J T Den Dunnen; F Macrae
Journal:  Fam Cancer       Date:  2013-06       Impact factor: 2.375

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