Literature DB >> 23626002

KGVDB: a population-based genomic map of CNVs tagged by SNPs in Koreans.

Sanghoon Moon1, Kwang Su Jung, Young Jin Kim, Mi Yeong Hwang, Kyungsook Han, Jong-Young Lee, Kiejung Park, Bong-Jo Kim.   

Abstract

SUMMARY: Despite a growing interest in a correlation between copy number variations (CNVs) and flanking single nucleotide polymorphisms, few databases provide such information. In particular, most information on CNV available so far was obtained in Caucasian and Yoruba populations, and little is known about CNV in Asian populations. This article presents a database that provides CNV regions tagged by single nucleotide polymorphisms in about 4700 Koreans, which were detected under strict quality control, manually curated and experimentally validated. AVAILABILITY: KGVDB is freely available for non-commercial use at http://biomi.cdc.go.kr/KGVDB. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

Mesh：

Year:  2013        PMID： 23626002      PMCID： PMC3661059          DOI： 10.1093/bioinformatics/btt173

Source DB:  PubMed          Journal:  Bioinformatics        ISSN： 1367-4803            Impact factor:   6.937


  14 in total

1.  Detection of large-scale variation in the human genome.

Authors:  A John Iafrate; Lars Feuk; Miguel N Rivera; Marc L Listewnik; Patricia K Donahoe; Ying Qi; Stephen W Scherer; Charles Lee
Journal:  Nat Genet       Date:  2004-08-01       Impact factor: 38.330

2.  Sparse representation and Bayesian detection of genome copy number alterations from microarray data.

Authors:  Roger Pique-Regi; Jordi Monso-Varona; Antonio Ortega; Robert C Seeger; Timothy J Triche; Shahab Asgharzadeh
Journal:  Bioinformatics       Date:  2008-01-18       Impact factor: 6.937

3.  Potential etiologic and functional implications of genome-wide association loci for human diseases and traits.

Authors:  Lucia A Hindorff; Praveen Sethupathy; Heather A Junkins; Erin M Ramos; Jayashri P Mehta; Francis S Collins; Teri A Manolio
Journal:  Proc Natl Acad Sci U S A       Date:  2009-05-27       Impact factor: 11.205

4.  A large-scale genome-wide association study of Asian populations uncovers genetic factors influencing eight quantitative traits.

Authors:  Yoon Shin Cho; Min Jin Go; Young Jin Kim; Jee Yeon Heo; Ji Hee Oh; Hyo-Jeong Ban; Dankyu Yoon; Mi Hee Lee; Dong-Joon Kim; Miey Park; Seung-Hun Cha; Jun-Woo Kim; Bok-Ghee Han; Haesook Min; Younjhin Ahn; Man Suk Park; Hye Ree Han; Hye-Yoon Jang; Eun Young Cho; Jong-Eun Lee; Nam H Cho; Chol Shin; Taesung Park; Ji Wan Park; Jong-Keuk Lee; Lon Cardon; Geraldine Clarke; Mark I McCarthy; Jong-Young Lee; Jong-Koo Lee; Bermseok Oh; Hyung-Lae Kim
Journal:  Nat Genet       Date:  2009-04-26       Impact factor: 38.330

5.  High-resolution mapping and analysis of copy number variations in the human genome: a data resource for clinical and research applications.

Authors:  Tamim H Shaikh; Xiaowu Gai; Juan C Perin; Joseph T Glessner; Hongbo Xie; Kevin Murphy; Ryan O'Hara; Tracy Casalunovo; Laura K Conlin; Monica D'Arcy; Edward C Frackelton; Elizabeth A Geiger; Chad Haldeman-Englert; Marcin Imielinski; Cecilia E Kim; Livija Medne; Kiran Annaiah; Jonathan P Bradfield; Elvira Dabaghyan; Andrew Eckert; Chioma C Onyiah; Svetlana Ostapenko; F George Otieno; Erin Santa; Julie L Shaner; Robert Skraban; Ryan M Smith; Josephine Elia; Elizabeth Goldmuntz; Nancy B Spinner; Elaine H Zackai; Rosetta M Chiavacci; Robert Grundmeier; Eric F Rappaport; Struan F A Grant; Peter S White; Hakon Hakonarson
Journal:  Genome Res       Date:  2009-07-10       Impact factor: 9.043

6.  Discovery of common Asian copy number variants using integrated high-resolution array CGH and massively parallel DNA sequencing.

Authors:  Hansoo Park; Jong-Il Kim; Young Seok Ju; Omer Gokcumen; Ryan E Mills; Sheehyun Kim; Seungbok Lee; Dongwhan Suh; Dongwan Hong; Hyunseok Peter Kang; Yun Joo Yoo; Jong-Yeon Shin; Hyun-Jin Kim; Maryam Yavartanoo; Young Wha Chang; Jung-Sook Ha; Wilson Chong; Ga-Ram Hwang; Katayoon Darvishi; Hyeran Kim; Song Ju Yang; Kap-Seok Yang; Hyungtae Kim; Matthew E Hurles; Stephen W Scherer; Nigel P Carter; Chris Tyler-Smith; Charles Lee; Jeong-Sun Seo
Journal:  Nat Genet       Date:  2010-04-04       Impact factor: 38.330

7.  Genome-wide association study of CNVs in 16,000 cases of eight common diseases and 3,000 shared controls.

Authors:  Nick Craddock; Matthew E Hurles; Niall Cardin; Richard D Pearson; Vincent Plagnol; Samuel Robson; Damjan Vukcevic; Chris Barnes; Donald F Conrad; Eleni Giannoulatou; Chris Holmes; Jonathan L Marchini; Kathy Stirrups; Martin D Tobin; Louise V Wain; Chris Yau; Jan Aerts; Tariq Ahmad; T Daniel Andrews; Hazel Arbury; Anthony Attwood; Adam Auton; Stephen G Ball; Anthony J Balmforth; Jeffrey C Barrett; Inês Barroso; Anne Barton; Amanda J Bennett; Sanjeev Bhaskar; Katarzyna Blaszczyk; John Bowes; Oliver J Brand; Peter S Braund; Francesca Bredin; Gerome Breen; Morris J Brown; Ian N Bruce; Jaswinder Bull; Oliver S Burren; John Burton; Jake Byrnes; Sian Caesar; Chris M Clee; Alison J Coffey; John M C Connell; Jason D Cooper; Anna F Dominiczak; Kate Downes; Hazel E Drummond; Darshna Dudakia; Andrew Dunham; Bernadette Ebbs; Diana Eccles; Sarah Edkins; Cathryn Edwards; Anna Elliot; Paul Emery; David M Evans; Gareth Evans; Steve Eyre; Anne Farmer; I Nicol Ferrier; Lars Feuk; Tomas Fitzgerald; Edward Flynn; Alistair Forbes; Liz Forty; Jayne A Franklyn; Rachel M Freathy; Polly Gibbs; Paul Gilbert; Omer Gokumen; Katherine Gordon-Smith; Emma Gray; Elaine Green; Chris J Groves; Detelina Grozeva; Rhian Gwilliam; Anita Hall; Naomi Hammond; Matt Hardy; Pile Harrison; Neelam Hassanali; Husam Hebaishi; Sarah Hines; Anne Hinks; Graham A Hitman; Lynne Hocking; Eleanor Howard; Philip Howard; Joanna M M Howson; Debbie Hughes; Sarah Hunt; John D Isaacs; Mahim Jain; Derek P Jewell; Toby Johnson; Jennifer D Jolley; Ian R Jones; Lisa A Jones; George Kirov; Cordelia F Langford; Hana Lango-Allen; G Mark Lathrop; James Lee; Kate L Lee; Charlie Lees; Kevin Lewis; Cecilia M Lindgren; Meeta Maisuria-Armer; Julian Maller; John Mansfield; Paul Martin; Dunecan C O Massey; Wendy L McArdle; Peter McGuffin; Kirsten E McLay; Alex Mentzer; Michael L Mimmack; Ann E Morgan; Andrew P Morris; Craig Mowat; Simon Myers; William Newman; Elaine R Nimmo; Michael C O'Donovan; Abiodun Onipinla; Ifejinelo Onyiah; Nigel R Ovington; Michael J Owen; Kimmo Palin; Kirstie Parnell; David Pernet; John R B Perry; Anne Phillips; Dalila Pinto; Natalie J Prescott; Inga Prokopenko; Michael A Quail; Suzanne Rafelt; Nigel W Rayner; Richard Redon; David M Reid; Susan M Ring; Neil Robertson; Ellie Russell; David St Clair; Jennifer G Sambrook; Jeremy D Sanderson; Helen Schuilenburg; Carol E Scott; Richard Scott; Sheila Seal; Sue Shaw-Hawkins; Beverley M Shields; Matthew J Simmonds; Debbie J Smyth; Elilan Somaskantharajah; Katarina Spanova; Sophia Steer; Jonathan Stephens; Helen E Stevens; Millicent A Stone; Zhan Su; Deborah P M Symmons; John R Thompson; Wendy Thomson; Mary E Travers; Clare Turnbull; Armand Valsesia; Mark Walker; Neil M Walker; Chris Wallace; Margaret Warren-Perry; Nicholas A Watkins; John Webster; Michael N Weedon; Anthony G Wilson; Matthew Woodburn; B Paul Wordsworth; Allan H Young; Eleftheria Zeggini; Nigel P Carter; Timothy M Frayling; Charles Lee; Gil McVean; Patricia B Munroe; Aarno Palotie; Stephen J Sawcer; Stephen W Scherer; David P Strachan; Chris Tyler-Smith; Matthew A Brown; Paul R Burton; Mark J Caulfield; Alastair Compston; Martin Farrall; Stephen C L Gough; Alistair S Hall; Andrew T Hattersley; Adrian V S Hill; Christopher G Mathew; Marcus Pembrey; Jack Satsangi; Michael R Stratton; Jane Worthington; Panos Deloukas; Audrey Duncanson; Dominic P Kwiatkowski; Mark I McCarthy; Willem Ouwehand; Miles Parkes; Nazneen Rahman; John A Todd; Nilesh J Samani; Peter Donnelly
Journal:  Nature       Date:  2010-04-01       Impact factor: 49.962

8.  Origins and functional impact of copy number variation in the human genome.

Authors:  Donald F Conrad; Dalila Pinto; Richard Redon; Lars Feuk; Omer Gokcumen; Yujun Zhang; Jan Aerts; T Daniel Andrews; Chris Barnes; Peter Campbell; Tomas Fitzgerald; Min Hu; Chun Hwa Ihm; Kati Kristiansson; Daniel G Macarthur; Jeffrey R Macdonald; Ifejinelo Onyiah; Andy Wing Chun Pang; Sam Robson; Kathy Stirrups; Armand Valsesia; Klaudia Walter; John Wei; Chris Tyler-Smith; Nigel P Carter; Charles Lee; Stephen W Scherer; Matthew E Hurles
Journal:  Nature       Date:  2009-10-07       Impact factor: 49.962

9.  A robust statistical method for case-control association testing with copy number variation.

Authors:  Chris Barnes; Vincent Plagnol; Tomas Fitzgerald; Richard Redon; Jonathan Marchini; David Clayton; Matthew E Hurles
Journal:  Nat Genet       Date:  2008-09-07       Impact factor: 38.330

10.  A study of CNVs as trait-associated polymorphisms and as expression quantitative trait loci.

Authors:  Eric R Gamazon; Dan L Nicolae; Nancy J Cox
Journal:  PLoS Genet       Date:  2011-02-03       Impact factor: 5.917
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  5 in total

1.  MicroRNA-650 in a copy number-variable region regulates the production of interleukin 6 in human osteosarcoma cells.

Authors:  Jun Ho Yun; Sanghoon Moon; Heun-Sik Lee; Mi Yeong Hwang; Yeon-Jung Kim; Ho-Yeong Yu; Youngsoo Kim; Bok-Ghee Han; Bong-Jo Kim; Jeong-Min Kim
Journal:  Oncol Lett       Date:  2015-08-07       Impact factor: 2.967

2.  Whole-exome sequencing study reveals common copy number variants in protocadherin genes associated with childhood obesity in Koreans.

Authors:  S Moon; M Y Hwang; H B Jang; S Han; Y J Kim; J-Y Hwang; H-J Lee; S I Park; J Song; B-J Kim
Journal:  Int J Obes (Lond)       Date:  2017-01-19       Impact factor: 5.095

3.  On the association analysis of CNV data: a fast and robust family-based association method.

Authors:  Meiling Liu; Sanghoon Moon; Longfei Wang; Sulgi Kim; Yeon-Jung Kim; Mi Yeong Hwang; Young Jin Kim; Robert C Elston; Bong-Jo Kim; Sungho Won
Journal:  BMC Bioinformatics       Date:  2017-04-18       Impact factor: 3.169

4.  KRGDB: the large-scale variant database of 1722 Koreans based on whole genome sequencing.

Authors:  Kwang Su Jung; Kyung-Won Hong; Hyun Youn Jo; Jongpill Choi; Hyo-Jeong Ban; Seong Beom Cho; Myungguen Chung
Journal:  Database (Oxford)       Date:  2020-01-01       Impact factor: 3.451

5.  Copy number variations in the genome of the Qatari population.

Authors:  Khalid A Fakhro; Noha A Yousri; Juan L Rodriguez-Flores; Amal Robay; Michelle R Staudt; Francisco Agosto-Perez; Jacqueline Salit; Joel A Malek; Karsten Suhre; Amin Jayyousi; Mahmoud Zirie; Dora Stadler; Jason G Mezey; Ronald G Crystal
Journal:  BMC Genomics       Date:  2015-10-22       Impact factor: 3.969
  5 in total

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