| | Other Issues: previous | next | latest | archiveCorrespondence Reduced body weight is a common effect of gene knockout in mice Danielle R Reed, Maureen P Lawler, and Michael G Tordoff PMCID: PMC2263071 Software HaploSNPer: a web-based allele and SNP detection tool Jifeng Tang, Jack AM Leunissen, Roeland E Voorrips, C Gerard van der Linden, and Ben Vosman PMCID: PMC2288614 PGA: power calculator for case-control genetic association analyses Idan Menashe, Philip S Rosenberg, and Bingshu E Chen PMCID: PMC2387159 Research Articles Multiple forms of atypical rearrangements generating supernumerary derivative chromosome 15 Nicholas J Wang, Alexander S Parokonny, Karen N Thatcher, Jennette Driscoll, Barbara M Malone, Naghmeh Dorrani, Marian Sigman, Janine M LaSalle, and N Carolyn Schanen PMCID: PMC2249594 Disentangling genetic vs. environmental causes of sex determination in the common frog, Rana temporaria Chikako Matsuba, Ikuo Miura, and Juha Merilä PMCID: PMC2265737 Correlated effects of selection for immunity in White Leghorn chicken lines on natural antibodies and specific antibody responses to KLH and M. butyricum Giulietta Minozzi, Henk K Parmentier, Sandrine Mignon-Grasteau, Mike GB Nieuwland, Bertrand Bed'hom, David Gourichon, Francis Minvielle, and Marie-Helen Pinard-van der Laan PMCID: PMC2246150 A single point-mutation within the melanophilin gene causes the lavender plumage colour dilution phenotype in the chicken Mohsen Vaez, Sarah A Follett, Bertrand Bed'hom, David Gourichon, Michèle Tixier-Boichard, and Terry Burke PMCID: PMC2253553 Insertion-deletion polymorphisms (indels) as genetic markers in natural populations Ülo Väli, Mikael Brandström, Malin Johansson, and Hans Ellegren PMCID: PMC2266919 Single nucleotide polymorphisms (SNPs) in coding regions of canine dopamine- and serotonin-related genes Jørn Våge and Frode Lingaas PMCID: PMC2268707 Microsatellite-based phylogeny of Indian domestic goats Pramod K Rout, Manjunath B Joshi, Ajoy Mandal, D Laloe, Lalji Singh, and Kumarasamy Thangaraj PMCID: PMC2268706 Interpopulation differences in expression of candidate genes for salinity tolerance in winter migrating anadromous brown trout (Salmo trutta L.) Peter F Larsen, Einar E Nielsen, Anders Koed, Dennis S Thomsen, Pål A Olsvik, and Volker Loeschcke PMCID: PMC2254441 Prevalence of common disease-associated variants in Asian Indians Trevor J Pemberton, Niyati U Mehta, David Witonsky, Anna Di Rienzo, Hooman Allayee, David V Conti, and Pragna I Patel PMCID: PMC2267478 Analysis of genetic variation in Ashkenazi Jews by high density SNP genotyping Adam B Olshen, Bert Gold, Kirk E Lohmueller, Jeffery P Struewing, Jaya Satagopan, Stefan A Stefanov, Eleazar Eskin, Tomas Kirchhoff, James A Lautenberger, Robert J Klein, Eitan Friedman, Larry Norton, Nathan A Ellis, Agnes Viale, Catherine S Lee, Patrick I Borgen, Andrew G Clark, Kenneth Offit, and Jeff Boyd PMCID: PMC2259380 Sequence variation in the human transcription factor gene POU5F1 Shehnaz K Hussain, Reynaldo Sequerra, Caterina Bertucci, Noel C Hastings, Mark Rieder, and Stephen M Schwartz PMCID: PMC2275747 Association mapping of partitioning loci in barley James Cockram, Jon White, Fiona J Leigh, Vincent J Lea, Elena Chiapparino, David A Laurie, Ian J Mackay, Wayne Powell, and Donal M O'Sullivan PMCID: PMC2276512 Identification and characterisation of novel SNP markers in Atlantic cod: Evidence for directional selection Thomas Moen, Ben Hayes, Frank Nilsen, Madjid Delghandi, Kjersti T Fjalestad, Svein-Erik Fevolden, Paul R Berg, and Sigbjørn Lien PMCID: PMC2288615 An evaluation of the performance of HapMap SNP data in a Shanghai Chinese population: Analyses of allele frequency, linkage disequilibrium pattern and tagging SNPs transferability on chromosome 1q21-q25 Cheng Hu, Weiping Jia, Weihua Zhang, Congrong Wang, Rong Zhang, Jie Wang, Xiaojing Ma, The International Type 2 Diabetes 1q Consortium, and Kunsan Xiang PMCID: PMC2292209 The PIT1 gene polymorphisms were associated with chicken growth traits Qinghua Nie, Meixia Fang, Liang Xie, Min Zhou, Zhangmin Liang, Ziping Luo, Guohuang Wang, Wensen Bi, Canjian Liang, Wei Zhang, and Xiquan Zhang PMCID: PMC2267206 Worldwide distribution of NAT2 diversity: Implications for NAT2 evolutionary history Audrey Sabbagh, André Langaney, Pierre Darlu, Nathalie Gérard, Rajagopal Krishnamoorthy, and Estella S Poloni PMCID: PMC2292740 Genome-wide identification of quantitative trait loci in a cross between Hampshire and Landrace II: Meat quality traits Ellen Markljung, Martin H Braunschweig, Peter Karlskov-Mortensen, Camilla S Bruun, Milena Sawera, In-Cheol Cho, Ingela Hedebro-Velander, Åsa Josell, Kerstin Lundström, Gertrud von Seth, Claus B Jørgensen, Merete Fredholm, and Leif Andersson PMCID: PMC2294140 Analysis of four achaete-scute homologs in Bombyx mori reveals new viewpoints of the evolution and functions of this gene family Qingxiang Zhou, Tianyi Zhang, Weihua Xu, Linlin Yu, Yongzhu Yi, and Zhifang Zhang PMCID: PMC2315653 Association of dopaminergic pathway gene polymorphisms with chronic renal insufficiency among Asian Indians with type-2 diabetes Pushplata Prasad, KM Prasanna Kumar, AC Ammini, Arvind Gupta, Rajeev Gupta, and BK Thelma PMCID: PMC2287188 Improved detection of global copy number variation using high density, non-polymorphic oligonucleotide probes Fan Shen, Jing Huang, Karen R Fitch, Vivi B Truong, Andrew Kirby, Wenwei Chen, Jane Zhang, Guoying Liu, Steven A McCarroll, Keith W Jones, and Michael H Shapero PMCID: PMC2374799 Very mild disease phenotype of congenic CftrTgH(neoim)Hgu cystic fibrosis mice Balázs Tóth, Martina Wilke, Frauke Stanke, Martina Dorsch, Silke Jansen, Dirk Wedekind, Nikoletta Charizopoulou, Alice Bot, Marion Burmester, Sabine Leonhard-Marek, Hugo R de Jonge, Hans-Jürgen Hedrich, Gerhard Breves, and Burkhard Tümmler PMCID: PMC2323021 Polymorphisms of Glutathione S-transferases Omega-1 among ethnic populations in China Songbo Fu, Jie Wu, Feng Chen, Dianjun Sun, and Songbin Fu PMCID: PMC2323397 GpnmbR150X allele must be present in bone marrow derived cells to mediate DBA/2J glaucoma Michael G Anderson, K Saidas Nair, Leslie A Amonoo, Adrienne Mehalow, Colleen M Trantow, Sharmila Masli, and Simon WM John PMCID: PMC2373794 Nucleotide diversity and population differentiation of the Melanocortin 1 Receptor gene, MC1R Sharon A Savage, Meg R Gerstenblith, Alisa M Goldstein, Lisa Mirabello, Maria Concetta Fargnoli, Ketty Peris, and Maria Teresa Landi PMCID: PMC2324112 Autosomal mutations affecting Y chromosome loops in Drosophila melanogaster Francesca Ceprani, Grazia D Raffa, Romano Petrucci, and Roberto Piergentili PMCID: PMC2386818 A single nucleotide polymorphism in CAPN1 associated with marbling score in Korean cattle Hyun Sub Cheong, Du-Hak Yoon, Byung Lae Park, Lyoung Hyo Kim, Joon Seol Bae, Sohg Namgoong, Hae Won Lee, Chang Soo Han, Ji On Kim, Il-Cheong Cheong, and Hyoung Doo Shin PMCID: PMC2386817 Overexpression of Scg5 increases enzymatic activity of PCSK2 and is inversely correlated with body weight in congenic mice Charles R Farber, James Chitwood, Sang-Nam Lee, Ricardo A Verdugo, Alma Islas-Trejo, Gonzalo Rincon, Iris Lindberg, and Juan F Medrano PMCID: PMC2386500 Precision-mapping and statistical validation of quantitative trait loci by machine learning Justin Bedo, Peter Wenzl, Adam Kowalczyk, and Andrzej Kilian PMCID: PMC2409372 An assessment of population structure in eight breeds of cattle using a whole genome SNP panel Stephanie D McKay, Robert D Schnabel, Brenda M Murdoch, Lakshmi K Matukumalli, Jan Aerts, Wouter Coppieters, Denny Crews, Emmanuel Dias Neto, Clare A Gill, Chuan Gao, Hideyuki Mannen, Zhiquan Wang, Curt P Van Tassell, John L Williams, Jeremy F Taylor, and Stephen S Moore PMCID: PMC2408608 Sequencing and genotypic analysis of the triosephosphate isomerase (TPI1) locus in a large sample of long-lived Germans Markus Ralser, Almut Nebel, Rabea Kleindorp, Sylvia Krobitsch, Hans Lehrach, Stefan Schreiber, Richard Reinhardt, and Bernd Timmermann PMCID: PMC2424074 Selection, diversity and evolutionary patterns of the MHC class II DAB in free-ranging Neotropical marsupials Yvonne Meyer-Lucht, Celine Otten, Thomas Püttker, and Simone Sommer PMCID: PMC2442840 Characterization, expression profiles, intracellular distribution and association analysis of porcine PNAS-4 gene with production traits Delin Mo, Zhengmao Zhu, Marinus FW te Pas, Xinyun Li, Shulin Yang, Heng Wang, Huanling Wang, and Kui Li PMCID: PMC2464599 Variation at the Calpain 3 gene is associated with meat tenderness in zebu and composite breeds of cattle William Barendse, Blair E Harrison, Rowan J Bunch, and Merle B Thomas PMCID: PMC2474649 Analysis of heterogeneity and epistasis in physiological mixed populations by combined structural equation modelling and latent class analysis Mogens Fenger, Allan Linneberg, Thomas Werge, and Torben Jørgensen PMCID: PMC2483291 Population-based estimate of sibling risk for preterm birth, preterm premature rupture of membranes, placental abruption and pre-eclampsia Jevon Plunkett, Ingrid Borecki, Thomas Morgan, David Stamilio, and Louis J Muglia PMCID: PMC2483292 High density linkage disequilibrium maps of chromosome 14 in Holstein and Angus cattle Elisa Marques, Robert D Schnabel, Paul Stothard, Davood Kolbehdari, Zhiquan Wang, Jeremy F Taylor, and Stephen S Moore PMCID: PMC2478670 Systematic genetic array analysis links the Saccharomyces cerevisiae SAGA/SLIK and NuA4 component Tra1 to multiple cellular processes Stephen MT Hoke, Julie Guzzo, Brenda Andrews, and Christopher J Brandl PMCID: PMC2495005 Culture creates genetic structure in the Caucasus: Autosomal, mitochondrial, and Y-chromosomal variation in Daghestan Elizabeth E Marchani, W Scott Watkins, Kazima Bulayeva, Henry C Harpending, and Lynn B Jorde PMCID: PMC2488347 Genomic characterisation, chromosomal assignment and in vivo localisation of the canine High Mobility Group A1 (HMGA1) gene Claudia Beuing, Jan T Soller, Michaela Muth, Sigfried Wagner, Gaudenz Dolf, Claude Schelling, Andreas Richter, Saskia Willenbrock, Nicola Reimann-Berg, Susanne Winkler, Ingo Nolte, Jorn Bullerdiek, and Hugo Murua Escobar PMCID: PMC2500044 Bovine CD14 gene characterization and relationship between polymorphisms and surface expression on monocytes and polymorphonuclear neutrophils Eveline M Ibeagha-Awemu, Jai-Wei Lee, Aloysius E Ibeagha, and Xin Zhao PMCID: PMC2536669 Use of latent class models to accommodate inter-laboratory variation in assessing genetic polymorphisms associated with disease risk Stephen D Walter and Eduardo L Franco PMCID: PMC2536667 Genetic variation in a member of the laminin gene family affects variation in body composition in Drosophila and humans Maria De Luca, Michelle Moses Chambers, Krista Casazza, Kerry H Lok, Gary R Hunter, Barbara A Gower, and José R Fernández PMCID: PMC2533007 Chicken meat quality: genetic variability and relationship with growth and muscle characteristics Elisabeth Le Bihan-Duval, Martine Debut, Cécile M Berri, Nadine Sellier, Véronique Santé-Lhoutellier, Yves Jégo, and Catherine Beaumont PMCID: PMC2533670 Population substructure in Finland and Sweden revealed by the use of spatial coordinates and a small number of unlinked autosomal SNPs Ulf Hannelius, Elina Salmela, Tuuli Lappalainen, Gilles Guillot, Cecilia M Lindgren, Ulrika von Döbeln, Päivi Lahermo, and Juha Kere PMCID: PMC2527025 Implementation of a model for identifying Essentially Derived Varieties in vegetatively propagated Calluna vulgaris varieties Thomas Borchert, Joerg Krueger, and Annette Hohe PMCID: PMC2536668 In search of causal variants: refining disease association signals using cross-population contrasts Nancy L Saccone, Scott F Saccone, Alison M Goate, Richard A Grucza, Anthony L Hinrichs, John P Rice, and Laura J Bierut PMCID: PMC2556340 Genetic and histological studies on the delayed systemic movement of Tobacco Mosaic Virus in Arabidopsis thaliana Carolina Serrano, Javiera González-Cruz, Francisca Jauregui, Consuelo Medina, Pablo Mancilla, José Tomás Matus, and Patricio Arce-Johnson PMCID: PMC2563018 Linkage disequilibrium compared between five populations of domestic sheep Jennifer RS Meadows, Eva KF Chan, and James W Kijas PMCID: PMC2572059 Detecting the effects of selection at the population level in six bovine immune genes Abigail R Freeman, David J Lynn, Caitriona Murray, and Daniel G Bradley PMCID: PMC2576349 A genome-wide scan for quantitative trait loci affecting limb bone lengths and areal bone mineral density of the distal femur in a White Duroc × Erhualian F2 population Huirong Mao, Yuanmei Guo, Guangcheng Yang, Bin Yang, Jun Ren, Sanfeng Liu, Huashui Ai, Junwu Ma, Bertram Brenig, and Lusheng Huang PMCID: PMC2613148 Homoeologous gene silencing in tissue cultured wheat callus Andrew Bottley, Natalie H Chapman, and Robert MD Koebner PMCID: PMC2576348 Calculating expected DNA remnants from ancient founding events in human population genetics Andrew Stacey, Nathan C Sheffield, and Keith A Crandall PMCID: PMC2588638 Canine fibroblast growth factor receptor 3 sequence is conserved across dogs of divergent skeletal size Logan B Smith, Danika L Bannasch, Amy E Young, Deborah I Grossman, Janelle M Belanger, and Anita M Oberbauer PMCID: PMC2576350 Application of two machine learning algorithms to genetic association studies in the presence of covariates Bareng AS Nonyane and Andrea S Foulkes PMCID: PMC2620353 Heterozygosity increases microsatellite mutation rate, linking it to demographic history William Amos, Jonathan Flint, and Xin Xu PMCID: PMC2615044 A second generation genetic map for rainbow trout (Oncorhynchus mykiss) Caird E Rexroad, III, Yniv Palti, Scott A Gahr, and Roger L Vallejo PMCID: PMC2605456 Intergenic DNA sequences from the human X chromosome reveal high rates of global gene flow Murray P Cox, August E Woerner, Jeffrey D Wall, and Michael F Hammer PMCID: PMC2620354 Simple sequence repeat markers useful for sorghum downy mildew (Peronosclerospora sorghi) and related species Ramasamy Perumal, Padmavathi Nimmakayala, Saradha R Erattaimuthu, Eun-Gyu No, Umesh K Reddy, Louis K Prom, Gary N Odvody, Douglas G Luster, and Clint W Magill PMCID: PMC2620352 A globally occurring indel polymorphism in the promoter of the IFNA2 gene is not associated with severity of malaria but with the positivity rate of HCV Cristina Tena-Tomás, Iara de Messias-Reason, Le H Song, Jürgen Tomiuk, Peter G Kemsner, and Jürgen FJ Kun PMCID: PMC2612697 Comparison of nonsense-mediated mRNA decay efficiency in various murine tissues Almoutassem B Zetoune, Sandra Fontanière, Delphine Magnin, Olga Anczuków, Monique Buisson, Chang X Zhang, and Sylvie Mazoyer PMCID: PMC2607305 Genetic variation in South Indian castes: evidence from Y-chromosome, mitochondrial, and autosomal polymorphisms WS Watkins, R Thara, BJ Mowry, Y Zhang, DJ Witherspoon, W Tolpinrud, MJ Bamshad, S Tirupati, R Padmavati, H Smith, D Nancarrow, C Filippich, and LB Jorde PMCID: PMC2621241 Methodology Articles Maximum likelihood estimates of two-locus recombination fractions under some natural inequality restrictions Ying Zhou, Ning-Zhong Shi, Wing-Kam Fung, and Jianhua Guo PMCID: PMC2249595 A hierarchical and modular approach to the discovery of robust associations in genome-wide association studies from pooled DNA samples Paola Sebastiani, Zhenming Zhao, Maria M Abad-Grau, Alberto Riva, Stephen W Hartley, Amanda E Sedgewick, Alessandro Doria, Monty Montano, Efthymia Melista, Dellara Terry, Thomas T Perls, Martin H Steinberg, and Clinton T Baldwin PMCID: PMC2248205 Estimating effects of rare haplotypes on failure time using a penalized Cox proportional hazards regression model Olga W Souverein, Aeilko H Zwinderman, J Wouter Jukema, and Michael WT Tanck PMCID: PMC2254440 A complete classification of epistatic two-locus models Ingileif B Hallgrímsdóttir and Debbie S Yuster PMCID: PMC2289835 Establishment of a new method for precisely determining the functions of individual mitochondrial genes, using Dictyostelium cells Junji Chida, Aiko Amagai, Masashi Tanaka, and Yasuo Maeda PMCID: PMC2330148 Combining identity by descent and association in genetic case-control studies Qingrun Zhang, Shuang Wang, and Jurg Ott PMCID: PMC2483716 Multitrait analysis of quantitative trait loci using Bayesian composite space approach Ming Fang, Dan Jiang, Li Jun Pu, Hui Jiang Gao, Peng Ji, Hong Yi Wang, and Run Qing Yang PMCID: PMC2515852 A method for genotype validation and primer assessment in heterozygote-deficient species, as demonstrated in the prosobranch mollusc Hydrobia ulvae Robert J Brownlow, Deborah A Dawson, Gavin J Horsburgh, James J Bell, and John D Fish PMCID: PMC2536670 Influence of genotyping error in linkage mapping for complex traits – an analytic study Jérémie JP Lebrec, Hein Putter, Jeanine J Houwing-Duistermaat, and Hans C van Houwelingen PMCID: PMC2533351 Measuring differentiation among populations at different levels of genetic integration Elizabeth M Gillet and Hans-Rolf Gregorius PMCID: PMC2584060 A highly polymorphic insertion in the Y-chromosome amelogenin gene can be used for evolutionary biology, population genetics and sexing in Cetacea and Artiodactyla Matthias Macé and Brigitte Crouau-Roy PMCID: PMC2580767 A Strategy to Setup Codominant Microsatellite Analysis for High-Resolution-Melting-Curve-Analysis (HRM) Eduard Mader, Brigitte Lukas, and Johannes Novak PMCID: PMC2588637 SNP discovery in swine by reduced representation and high throughput pyrosequencing Ralph T Wiedmann, Timothy PL Smith, and Dan J Nonneman PMCID: PMC2612698 |
