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Complex traits and quantitative genetics

Section edited by Jim Reecy

This section incorporates all aspects of complex trait and quantitative genetics including but not limited to: mapping and association studies, the genetic basis of disease, genetics aspects of breeding and linkage analysis.

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  1. Content type: Research article

    Genome-wide association studies have identified variants associated with obesity-related traits, such as the body mass index (BMI). We sought to determine how the combination of 31 validated, BMI-associated lo...

    Authors: Louisa Goumidi, Dominique Cottel, Jean Dallongeville, Philippe Amouyel and Aline Meirhaeghe

    Citation: BMC Genetics 2014 15:62

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  2. Content type: Research article

    Gray leaf spot (GLS) is a globally important foliar disease of maize. Cercospora zeina, one of the two fungal species that cause the disease, is prevalent in southern Africa, China, Brazil and the eastern corn be...

    Authors: Dave K Berger, Maryke Carstens, Jeanne N Korsman, Felix Middleton, Frederik J Kloppers, Pangirayi Tongoona and Alexander A Myburg

    Citation: BMC Genetics 2014 15:60

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  3. Content type: Research article

    Plant height is a prime example of a dynamic trait that changes constantly throughout adult development. In this study we utilised a large triticale mapping population, comprising 647 doubled haploid lines der...

    Authors: Tobias Würschum, Wenxin Liu, Lucas Busemeyer, Matthew R Tucker, Jochen C Reif, Elmar A Weissmann, Volker Hahn, Arno Ruckelshausen and Hans Peter Maurer

    Citation: BMC Genetics 2014 15:59

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  4. Content type: Research article

    The C34T genetic polymorphism (rs17602729) in the AMPD1 gene, encoding the skeletal muscle-specific isoform of adenosine monophosphate deaminase (AMPD1), is a common polymorphism among Caucasians that can impair ...

    Authors: Valentina Ginevičienė, Audronė Jakaitienė, Aidas Pranculis, Kazys Milašius, Linas Tubelis and Algirdas Utkus

    Citation: BMC Genetics 2014 15:58

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  5. Content type: Research article

    Refractive errors and high myopia are the most common ocular disorders, and both of them are leading causes of blindness in the world. Recently, genetic association studies in European and Japanese population ...

    Authors: Yu Qiang, Wenjin Li, Qingzhong Wang, Kuanjun He, Zhiqiang Li, Jianhua Chen, Zhijian Song, Jia Qu, Xiangtian Zhou, Shengying Qin, Jiawei Shen, Zujia Wen, Jue Ji and Yongyong Shi

    Citation: BMC Genetics 2014 15:51

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  6. Content type: Research article

    Chalkiness is a major constraint in rice production because it is one of the key factors determining grain quality (appearance, processing, milling, storing, eating, and cooking quality) and price. Its reducti...

    Authors: Bo Peng, Lingqiang Wang, Chuchuan Fan, Gonghao Jiang, Lijun Luo, Yibo Li and Yuqing He

    Citation: BMC Genetics 2014 15:49

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  7. Content type: Research article

    Lysosome-associated protein transmembrane-4 beta (LAPTM4B) is a novel cancer-related gene. While recent studies have reported that the LAPTM4B polymorphism increased the susceptibility of several cancers, the res...

    Authors: Cuiju Mo, Yu Lu, Yan Deng, Jian Wang, Li Xie, Taijie Li, Yu He, Qiliu Peng, Xue Qin and Shan Li

    Citation: BMC Genetics 2014 15:48

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  8. Content type: Research article

    It has been shown that hematological traits are strongly associated with the metabolism and the immune system in domestic pig. However, little is known about the genetic architecture of hematological traits. T...

    Authors: Feng Zhang, Zhiyan Zhang, Xueming Yan, Hao Chen, Wanchang Zhang, Yuan Hong and Lusheng Huang

    Citation: BMC Genetics 2014 15:41

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  9. Content type: Research article

    Meat from Bos taurus and Bos indicus breeds are an important source of nutrients for humans and intramuscular fat (IMF) influences its flavor, nutritional value and impacts human health. Human consumption of fat ...

    Authors: Aline SM Cesar, Luciana CA Regitano, Gerson B Mourão, Rymer R Tullio, Dante PD Lanna, Renata T Nassu, Maurício A Mudado, Priscila SN Oliveira, Michele L do Nascimento, Amália S Chaves, Maurício M Alencar, Tad S Sonstegard, Dorian J Garrick, James M Reecy and Luiz L Coutinho

    Citation: BMC Genetics 2014 15:39

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  10. Content type: Research article

    Low vitamin D status has been shown to be a risk factor for several metabolic traits such as obesity, diabetes and cardiovascular disease. The biological actions of 1, 25-dihydroxyvitamin D, are mediated throu...

    Authors: Karani S Vimaleswaran, Alana Cavadino, Diane J Berry, Massimo Mangino, Peter Andrews, Jason H Moore, Timothy D Spector, Chris Power, Marjo-Riitta Järvelin and Elina Hyppönen

    Citation: BMC Genetics 2014 15:37

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  11. Content type: Methodology article

    Discerning the traits evolving under neutral conditions from those traits evolving rapidly because of various selection pressures is a great challenge. We propose a new method, composite selection signals (CSS...

    Authors: Imtiaz Ahmed Sajid Randhawa, Mehar Singh Khatkar, Peter Campbell Thomson and Herman Willem Raadsma

    Citation: BMC Genetics 2014 15:34

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  12. Content type: Research article

    Feed efficiency is one of the major components determining costs of animal production. Residual feed intake (RFI) is defined as the difference between the observed and the expected feed intake given a certain ...

    Authors: Duy Ngoc Do, Tage Ostersen, Anders Bjerring Strathe, Thomas Mark, Just Jensen and Haja N Kadarmideen

    Citation: BMC Genetics 2014 15:27

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  13. Content type: Research article

    Copy number variants (CNVs) may play an important part in the development of common birth defects such as oral clefts, and individual patients with multiple birth defects (including clefts) have been shown to ...

    Authors: Samuel G Younkin, Robert B Scharpf, Holger Schwender, Margaret M Parker, Alan F Scott, Mary L Marazita, Terri H Beaty and Ingo Ruczinski

    Citation: BMC Genetics 2014 15:24

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  14. Content type: Research article

    Feed intake plays an important economic role in beef cattle, and is related with feed efficiency, weight gain and carcass traits. However, the phenotypes collected for dry matter intake and feed efficiency are...

    Authors: Miguel HA Santana, Yuri T Utsunomiya, Haroldo HR Neves, Rodrigo C Gomes, José F Garcia, Heidge Fukumasu, Saulo L Silva, Gerson A Oliveira Junior, Pâmela A Alexandre, Paulo R Leme, Ricardo A Brassaloti, Luiz L Coutinho, Thiago G Lopes, Flávio V Meirelles, Joanir P Eler and José BS Ferraz

    Citation: BMC Genetics 2014 15:21

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  15. Content type: Research article

    Japanese Black cattle are a beef breed whose meat is well known to excel in meat quality, especially in marbling, and whose effective population size is relatively low in Japan. Unlike dairy cattle, the accura...

    Authors: Shinichiro Ogawa, Hirokazu Matsuda, Yukio Taniguchi, Toshio Watanabe, Shota Nishimura, Yoshikazu Sugimoto and Hiroaki Iwaisaki

    Citation: BMC Genetics 2014 15:15

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  16. Content type: Research article

    Availability of irrigation water is becoming a major limiting factor in rice cultivation. Production in rainfed areas is affected in particular by drought events, as these areas are commonly planted to high-yi...

    Authors: Shalabh Dixit, Anshuman Singh, Ma Teresa Sta Cruz, Paul T Maturan, Modesto Amante and Arvind Kumar

    Citation: BMC Genetics 2014 15:16

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  17. Content type: Research article

    This study was conducted to: (1) identify new SNPs for residual feed intake (RFI) and performance traits within candidate genes identified in a genome wide association study (GWAS); (2) estimate the proportion...

    Authors: Mohammed K Abo-Ismail, Gordon Vander Voort, James J Squires, Kendall C Swanson, Ira B Mandell, Xiaoping Liao, Paul Stothard, Stephen Moore, Graham Plastow and Stephen P Miller

    Citation: BMC Genetics 2014 15:14

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  18. Content type: Methodology article

    Monogenic diabetes is a genetic disease often caused by mutations in genes involved in beta-cell function. Correct sub-categorization of the disease is a prerequisite for appropriate treatment and genetic coun...

    Authors: Rui Gao, Yanxia Liu, Anette Prior Gjesing, Mette Hollensted, Xianzi Wan, Shuwen He, Oluf Pedersen, Xin Yi, Jun Wang and Torben Hansen

    Citation: BMC Genetics 2014 15:13

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  19. Content type: Research article

    The peroxisome proliferator-activated receptor gamma (PPARG), Pro12Ala and the insulin receptor substrate (IRS1), Gly972Arg confer opposite effects on insulin resistance and type 2 diabetes mellitus (T2DM). We in...

    Authors: Zelda Vergotine, Yandiswa Y Yako, Andre P Kengne, Rajiv T Erasmus and Tandi E Matsha

    Citation: BMC Genetics 2014 15:10

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  20. Content type: Research article

    The results obtained from genome-wide association studies (GWAS) often show pronounced disagreements. Validation of association studies is therefore desired before marker information is incorporated in selecti...

    Authors: Johanna K Höglund, Goutam Sahana, Bernt Guldbrandtsen and Mogens S Lund

    Citation: BMC Genetics 2014 15:8

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  21. Content type: Research article

    Previous genome-wide association studies have identified significant regions of the X chromosome associated with reproductive traits in two Bos indicus-influenced breeds: Brahman cattle and Tropical Composites. T...

    Authors: Russell E Lyons, Nguyen To Loan, Leanne Dierens, Marina R S Fortes, Matthew Kelly, Sean S McWilliam, Yutao Li, Rowan J Bunch, Blair E Harrison, William Barendse, Sigrid A Lehnert and Stephen S Moore

    Citation: BMC Genetics 2014 15:6

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  22. Content type: Research article

    Androstenone is one of the major compounds responsible for boar taint, a pronounced urine-like odor produced when cooking boar meat. Several studies have identified quantitative trait loci (QTL) for androsteno...

    Authors: André M Hidalgo, John WM Bastiaansen, Barbara Harlizius, Hendrik-Jan Megens, Ole Madsen, Richard PMA Crooijmans and Martien AM Groenen

    Citation: BMC Genetics 2014 15:4

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  23. Content type: Research article

    Improvement of feed efficiency in pigs is of great economical and environmental interest and contributes to use limited resources efficiently to feed the world population. Genome scans for feed efficiency trai...

    Authors: Mahmoud Shirali, Carol-Anne Duthie, Andrea Doeschl-Wilson, Pieter W Knap, Egbert Kanis, Johan AM van Arendonk and Rainer Roehe

    Citation: BMC Genetics 2013 14:121

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  24. Content type: Research article

    The extent of linkage disequilibrium (LD) is of critical importance for genomic selection and marker assisted selection. The primary purpose of this study is to examine patterns of LD in three Danish pig breed...

    Authors: Lei Wang, Peter Sørensen, Luc Janss, Tage Ostersen and David Edwards

    Citation: BMC Genetics 2013 14:115

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  25. Content type: Research article

    Orange-spotted grouper, Epinephelus coioides, is one of the most valuable fish species in China. Commercial production of orange-spotted grouper could be increased by developing higher growth rates and improving ...

    Authors: Xinxin You, Liping Shu, Shuisheng Li, Jieming Chen, Jian Luo, Jun Lu, Qian Mu, Jie Bai, Qiuju Xia, Qingchun Chen, Yanjie Cai, Haifa Zhang, Guohua Chen, Haoran Lin, Yong Zhang and Qiong Shi

    Citation: BMC Genetics 2013 14:113

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  26. Content type: Research article

    Myostatin (MSTN) belongs to the transforming growth factor-β superfamily and is a potent negative regulator of skeletal muscle development and growth in mammals. Most teleost fish possess two MSTN paralogues. How...

    Authors: Carolina Peñaloza, Alastair Hamilton, Derrick R Guy, Stephen C Bishop and Ross D Houston

    Citation: BMC Genetics 2013 14:112

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  27. Content type: Research article

    The objective was to investigate the association between BMI and single nucleotide polymorphisms previously identified of obesity-related genes in two Spanish populations. Forty SNPs in 23 obesity-related gene...

    Authors: Fernando Martínez-García, María L Mansego, Gemma Rojo-Martínez, Griselda De Marco-Solar, Sonsoles Morcillo, Federico Soriguer, Josep Redón, Monica Pineda Alonso, Juan C Martín-Escudero, Richard S Cooper and Felipe J Chaves

    Citation: BMC Genetics 2013 14:111

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  28. Content type: Research article

    Ruffs (Aves: Philomachus pugnax) possess a genetic polymorphism for male mating behaviour resulting in three permanent alternative male reproductive morphs: (i) territorial ‘Independents’, (ii) non-territorial ‘S...

    Authors: Lindsay L Farrell, Terry Burke, Jon Slate, Susan B McRae and David B Lank

    Citation: BMC Genetics 2013 14:109

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  29. Content type: Research article

    Low bone mineral density (BMD) is a primary risk factor for osteoporosis and is a highly heritable trait, but appears to be influenced by many genes. Genome-wide linkage studies have highlighted the chromosoma...

    Authors: Benjamin H Mullin, Cyril Mamotte, Richard L Prince, Tim D Spector, Frank Dudbridge and Scott G Wilson

    Citation: BMC Genetics 2013 14:107

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  30. Content type: Research article

    Water scarcity and drought have seriously threatened traditional rice cultivation practices in several parts of the world, including India. Aerobic rice that uses significantly less water than traditional floo...

    Authors: Nitika Sandhu, Sunita Jain, Arvind Kumar, Balwant Singh Mehla and Rajinder Jain

    Citation: BMC Genetics 2013 14:104

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  31. Content type: Research article

    Shifts in body composition, such as accumulation of body fat, can be a symptom of many chronic human diseases; hence, efforts have been made to investigate the genetic mechanisms that underlie body composition...

    Authors: Ye Cheng, Satyanarayana Rachagani, Angela Cánovas, Mary Sue Mayes, Richard G Tait Jr, Jack CM Dekkers and James M Reecy

    Citation: BMC Genetics 2013 14:103

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  32. Content type: Research article

    The pH is an important parameter influencing technological quality of pig meat, a trait affected by environmental and genetic factors. Several quantitative trait loci associated to meat pH are described on Pig...

    Authors: Paolo Zambonelli, Roberta Davoli, Mila Bigi, Silvia Braglia, Luigi Francesco De Paolis, Luca Buttazzoni, Maurizio Gallo and Vincenzo Russo

    Citation: BMC Genetics 2013 14:99

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  33. Content type: Research article

    Traditional breeding programs consider an average pairwise kinship between sibs. Based on pedigree information, the relationship matrix is used for genetic evaluations disregarding variation due to Mendelian s...

    Authors: Marcos S Lopes, Fabyano F Silva, Barbara Harlizius, Naomi Duijvesteijn, Paulo S Lopes, Simone EF Guimarães and Egbert F Knol

    Citation: BMC Genetics 2013 14:92

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  34. Content type: Research article

    Genetic epilepsy with febrile seizures plus (GEFS+) is a familial epilepsy syndrome with extremely variable expressivity. The aim of our study was to identify the responsible locus for GEFS+ syndrome in a cons...

    Authors: Nejla Belhedi, Frédérique Bena, Amel Mrabet, Michel Guipponi, Chiraz Bouchlaka Souissi, Hela Khiari Mrabet, Amel Benammar Elgaaied, Alain Malafosse and Annick Salzmann

    Citation: BMC Genetics 2013 14:93

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  35. Content type: Research article

    Genome-wide association study (GWAS) has identified that rs8050136 C/A polymorphism in fat mass and obesity-associated gene (FTO) was associated with the risk of type 2 diabetes (T2D) in Europeans. But this assoc...

    Authors: Yun Qian, Sijun Liu, Feng Lu, Huizhang Li, Meihua Dong, Yudi Lin, Jiangbo Du, Yuan Lin, Jianhang Gong, Guangfu Jin, Juncheng Dai, Zhibin Hu and Hongbing Shen

    Citation: BMC Genetics 2013 14:86

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  36. Content type: Research article

    Genomic selection exploits dense genome-wide marker data to predict breeding values. In this study we used a large sugar beet population of 924 lines representing different germplasm types present in breeding ...

    Authors: Tobias Würschum, Jochen C Reif, Thomas Kraft, Geert Janssen and Yusheng Zhao

    Citation: BMC Genetics 2013 14:85

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  37. Content type: Research article

    Genetic improvement of beef quality will benefit both producers and consumers, and can be achieved by selecting animals that carry desired quantitative trait nucleotides (QTN), which result from intensive sear...

    Authors: Duc Lu, Mehdi Sargolzaei, Matthew Kelly, Gordon Vander Voort, Zhiquan Wang, Ira Mandell, Stephen Moore, Graham Plastow and Stephen Paul Miller

    Citation: BMC Genetics 2013 14:80

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  38. Content type: Research article

    For several years, in human nutrition there has been a focus on the proportion of unsaturated fatty acids (UFA) and saturated fatty acids (SFA) found in bovine milk. The positive health-related properties of U...

    Authors: Kristian Krag, Nina A Poulsen, Mette K Larsen, Lotte B Larsen, Luc L Janss and Bart Buitenhuis

    Citation: BMC Genetics 2013 14:79

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  39. Content type: Research article

    Periodontal infection (Periodontitis) is a chronic inflammatory disease, which results in the breakdown of the supporting tissues of the teeth. Previous epidemiological studies have suggested that resistance t...

    Authors: Ariel Shusterman, Yasser Salyma, Aysar Nashef, Morris Soller, Asaf Wilensky, Richard Mott, Ervin I Weiss, Yael Houri-Haddad and Fuad A Iraqi

    Citation: BMC Genetics 2013 14:68

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  40. Content type: Research article

    Kisspeptins are the peptide products of KISS1 gene, which operate via the G - protein-coupled receptor GPR54. These peptides have emerged as essential upstream regulators of neurons secreting gonadotropin-releasi...

    Authors: Xiaopeng An, Teng Ma, Jinxing Hou, Fang Fang, Peng Han, Yan Yan, Haibo Zhao, Yunxuan Song, Jiangang Wang and Binyun Cao

    Citation: BMC Genetics 2013 14:63

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  41. Content type: Research article

    Birth weight (BW) is an economically important trait in beef cattle, and is associated with growth- and stature-related traits and calving difficulty. One region of the cattle genome, located on Bos primigenius t...

    Authors: Yuri T Utsunomiya, Adriana S do Carmo, Roberto Carvalheiro, Haroldo HR Neves, Márcia C Matos, Ludmilla B Zavarez, Ana M Pérez O’Brien, Johann Sölkner, John C McEwan, John B Cole, Curtis P Van Tassell, Flávio S Schenkel, Marcos VGB da Silva, Laercio R Porto Neto, Tad S Sonstegard and José F Garcia

    Citation: BMC Genetics 2013 14:52

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  42. Content type: Research article

    Meat quality involves many traits, such as marbling, tenderness, juiciness, and backfat thickness, all of which require attention from livestock producers. Backfat thickness improvement by means of traditional...

    Authors: Fabiana Barichello Mokry, Roberto Hiroshi Higa, Maurício de Alvarenga Mudadu, Andressa Oliveira de Lima, Sarah Laguna Conceição Meirelles, Marcos Vinicius Gualberto Barbosa da Silva, Fernando Flores Cardoso, Maurício Morgado de Oliveira, Ismael Urbinati, Simone Cristina Méo Niciura, Rymer Ramiz Tullio, Maurício Mello de Alencar and Luciana Correia de Almeida Regitano

    Citation: BMC Genetics 2013 14:47

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  43. Content type: Research article

    Porcine chromosome X harbors four QTL strongly affecting backfat thickness (BFT), ham weight (HW), intramuscular fat content (IMF) and loin eye area (LEA). The confidence intervals (CI) of these QTL overlap an...

    Authors: Junwu Ma, Hélène Gilbert, Nathalie Iannuccelli, Yanyu Duan, Beili Guo, Weibing Huang, Huanban Ma, Juliette Riquet, Jean-Pierre Bidanel, Lusheng Huang and Denis Milan

    Citation: BMC Genetics 2013 14:46

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  44. Content type: Research article

    The Belgian Malinois dog breed (MAL) is frequently used in law enforcement and military environments. Owners have reported seizures and unpredictable behavioral changes including dogs’ eyes “glazing over,” dog...

    Authors: Lisa Lit, Janelle M Belanger, Debby Boehm, Nathan Lybarger, Anouck Haverbeke, Claire Diederich and Anita M Oberbauer

    Citation: BMC Genetics 2013 14:45

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  45. Content type: Research article

    Congenital heart defects (CHD) is the most common cause of death from a congenital structure abnormality in newborns and is often associated with fetal loss. There are many types of CHD. Human genetic studies ...

    Authors: Antònia Flaquer, Clemens Baumbach, Estefania Piñero, Fernando García Algas, María Angeles de la Fuente Sanchez, Jordi Rosell, Jorge Toquero, Luis Alonso-Pulpon, Pablo Garcia-Pavia, Konstantin Strauch and Damian Heine-Suñer

    Citation: BMC Genetics 2013 14:44

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