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Reliable single chip genotyping with semi-parametric log-concave mixtures

Rippe, Ralph C A ; Meulman, Jacqueline J ; Eilers, Paul H C

PloS one, 2012, Vol.7(10), pp.e46267 [Peer Reviewed Journal]

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Efficient method of genotyping ob/ob mice using high resolution melting analysis

Sutter, Alton G ; Palanisamy, Arun P ; Kurtz, Nichole ; Spyropoulos, Demetri D ; Chavin, Kenneth D

PloS one, 2013, Vol.8(11), pp.e78840 [Peer Reviewed Journal]

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Exploiting SNP correlations within random forest for genome-wide association studies

Botta, Vincent ; Louppe, Gilles ; Geurts, Pierre ; Wehenkel, Louis

PloS one, 2014, Vol.9(4), pp.e93379 [Peer Reviewed Journal]

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Elucidating biogeographical patterns in Australian native canids using genome wide SNPs

Cairns, Kylie M ; Shannon, Laura M ; Koler-Matznick, Janice ; Ballard, J William O ; Boyko, Adam R

PloS one, 2018, Vol.13(6), pp.e0198754 [Peer Reviewed Journal]

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Identification and annotation of breed-specific single nucleotide polymorphisms in Bos taurus genomes

Czech, Bartosz ; Frąszczak, Magdalena ; Mielczarek, Magda ; Szyda, Joanna

PloS one, 2018, Vol.13(6), pp.e0198419 [Peer Reviewed Journal]

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Utilizing genotype imputation for the augmentation of sequence data

Fridley, Brooke L ; Jenkins, Gregory ; Deyo-Svendsen, Matthew E ; Hebbring, Scott ; Freimuth, Robert

PloS one, 08 June 2010, Vol.5(6), pp.e11018 [Peer Reviewed Journal]

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Influence of Physical Inactivity on Associations Between Single Nucleotide Polymorphisms and Genetic Predisposition to Childhood Obesity

Xi, Bo ; Wang, Chunyu ; Wu, Lijun ; Zhang, Meixian ; Shen, Yue ; Zhao, Xiaoyuan ; Wang, Xingyu ; Mi, Jie

American Journal of Epidemiology, 2011, Vol. 173(11), pp.1256-1262 [Peer Reviewed Journal]

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Population genomic analyses based on 1 million SNPs in commercial egg layers

Gholami, Mahmood ; Erbe, Malena ; Gärke, Christian ; Preisinger, Rudolf ; Weigend, Annett ; Weigend, Steffen ; Simianer, Henner

PloS one, 2014, Vol.9(4), pp.e94509 [Peer Reviewed Journal]

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The Genome of the Trinidadian Guppy, Poecilia reticulata, and Variation in the Guanapo Population

Künstner, Axel ; Hoffmann, Margarete ; Fraser, Bonnie A ; Kottler, Verena A ; Sharma, Eshita ; Weigel, Detlef ; Dreyer, Christine

PloS one, 2016, Vol.11(12), pp.e0169087 [Peer Reviewed Journal]

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Characterization of SNPs associated with prostate cancer in men of Ashkenazic descent from the set of GWAS identified SNPs: impact of cancer family history and cumulative SNP risk prediction

Agalliu, Ilir ; Wang, Zhaoming ; Wang, Tao ; Dunn, Anne ; Parikh, Hemang ; Myers, Timothy ; Burk, Robert D ; Amundadottir, Laufey

PloS one, 2013, Vol.8(4), pp.e60083 [Peer Reviewed Journal]

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Population genomic analysis of 962 whole genome sequences of humans reveals natural selection in non-coding regions

Yu, Fuli ; Lu, Jian ; Liu, Xiaoming ; Gazave, Elodie ; Chang, Diana ; Raj, Srilakshmi ; Hunter-Zinck, Haley ; Blekhman, Ran ; Arbiza, Leonardo ; Van Hout, Cris ; Morrison, Alanna ; Johnson, Andrew D ; Bis, Joshua ; Cupples, L Adrienne ; Psaty, Bruce M ; Muzny, Donna ; Yu, Jin ; Gibbs, Richard A ; Keinan, Alon ; Clark, Andrew G ; Boerwinkle, Eric

PloS one, 2015, Vol.10(3), pp.e0121644 [Peer Reviewed Journal]

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Construction and evaluation of a high-density SNP array for the Pacific oyster (Crassostrea gigas)

Qi, Haigang ; Song, Kai ; Li, Chunyan ; Wang, Wei ; Li, Busu ; Li, Li ; Zhang, Guofan

PloS one, 2017, Vol.12(3), pp.e0174007 [Peer Reviewed Journal]

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Combinations of genetic variants associated with bipolar disorder

Mellerup, Erling ; Andreassen, Ole A ; Bennike, Bente ; Dam, Henrik ; Djurovic, Srdjan ; Jorgensen, Martin Balslev ; Kessing, Lars Vedel ; Koefoed, Pernille ; Melle, Ingrid ; Mors, Ole ; Moeller, Gert Lykke

PloS one, 2017, Vol.12(12), pp.e0189739 [Peer Reviewed Journal]

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Genomic and metabolomic profile associated to microalbuminuria

Marrachelli, Vannina G ; Monleon, Daniel ; Rentero, Pilar ; Mansego, María L ; Morales, Jose Manuel ; Galan, Inma ; Segura, Remedios ; Martinez, Fernando ; Martin-Escudero, Juan Carlos ; Briongos, Laisa ; Marin, Pablo ; Lliso, Gloria ; Chaves, Felipe Javier ; Redon, Josep

PloS one, 2014, Vol.9(2), pp.e98227 [Peer Reviewed Journal]

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Quantitative assessment of common genetic variants on chromosome 5p12 and hormone receptor status with breast cancer risk

Yu, Yanmin ; Chen, Zenggan ; Wang, Hong ; Zhang, Yan

PloS one, 2013, Vol.8(8), pp.e72154 [Peer Reviewed Journal]

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Bioinformatics-driven identification and examination of candidate genes for non-alcoholic fatty liver disease

Banasik, Karina ; Justesen, Johanne M ; Hornbak, Malene ; Krarup, Nikolaj T ; Gjesing, Anette P ; Sandholt, Camilla H ; Jensen, Thomas S ; Grarup, Niels ; Andersson, Asa ; Jørgensen, Torben ; Witte, Daniel R ; Sandbæk, Annelli ; Lauritzen, Torsten ; Thorens, Bernard ; Brunak, Søren ; Sørensen, Thorkild I A ; Pedersen, Oluf ; Hansen, Torben

PloS one, 27 January 2011, Vol.6(1), pp.e16542 [Peer Reviewed Journal]

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17
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A systematic evaluation of short tandem repeats in lipid candidate genes: riding on the SNP-wave

Lamina, Claudia ; Haun, Margot ; Coassin, Stefan ; Kloss-Brandstätter, Anita ; Gieger, Christian ; Peters, Annette ; Grallert, Harald ; Strauch, Konstantin ; Meitinger, Thomas ; Kedenko, Lyudmyla ; Paulweber, Bernhard ; Kronenberg, Florian

PloS one, 2014, Vol.9(7), pp.e102113 [Peer Reviewed Journal]

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18
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A SNP-Based Molecular Barcode for Characterization of Common Wheat

Gao, Lifeng ; Jia, Jizeng ; Kong, Xiuying

PloS one, 2016, Vol.11(3), pp.e0150947 [Peer Reviewed Journal]

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19
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TaqMan real-time PCR assays for single-nucleotide polymorphisms which identify Francisella tularensis and its subspecies and subpopulations

Birdsell, Dawn N ; Vogler, Amy J ; Buchhagen, Jordan ; Clare, Ashley ; Kaufman, Emily ; Naumann, Amber ; Driebe, Elizabeth ; Wagner, David M ; Keim, Paul S

PloS one, 2014, Vol.9(9), pp.e107964 [Peer Reviewed Journal]

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A latent model for prioritization of SNPs for functional studies

Fridley, Brooke L ; Iversen, Ed ; Tsai, Ya-Yu ; Jenkins, Gregory D ; Goode, Ellen L ; Sellers, Thomas A

PloS one, 2011, Vol.6(6), pp.e20764 [Peer Reviewed Journal]

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21
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A Pooled Genome-Wide Association Study of Asperger Syndrome

Warrier, Varun ; Chakrabarti, Bhismadev ; Murphy, Laura ; Chan, Allen ; Craig, Ian ; Mallya, Uma ; Lakatošová, Silvia ; Rehnstrom, Karola ; Peltonen, Leena ; Wheelwright, Sally ; Allison, Carrie ; Fisher, Simon E ; Baron-Cohen, Simon

PloS one, 2015, Vol.10(7), pp.e0131202 [Peer Reviewed Journal]

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22
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Prediction of protein-destabilizing polymorphisms by manual curation with protein structure

Gough, Craig Alan ; Homma, Keiichi ; Yamaguchi-Kabata, Yumi ; Shimada, Makoto K ; Chakraborty, Ranajit ; Fujii, Yasuyuki ; Iwama, Hisakazu ; Minoshima, Shinsei ; Sakamoto, Shigetaka ; Sato, Yoshiharu ; Suzuki, Yoshiyuki ; Tada-Umezaki, Masahito ; Nishikawa, Ken ; Imanishi, Tadashi ; Gojobori, Takashi

PloS one, 2012, Vol.7(11), pp.e50445 [Peer Reviewed Journal]

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23
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openSNP--a crowdsourced web resource for personal genomics

Greshake, Bastian ; Bayer, Philipp E ; Rausch, Helge ; Reda, Julia

PloS one, 2014, Vol.9(3), pp.e89204 [Peer Reviewed Journal]

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24
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Development of strategies for SNP detection in RNA-seq data: application to lymphoblastoid cell lines and evaluation using 1000 Genomes data

Quinn, Emma M ; Cormican, Paul ; Kenny, Elaine M ; Hill, Matthew ; Anney, Richard ; Gill, Michael ; Corvin, Aiden P ; Morris, Derek W

PloS one, 2013, Vol.8(3), pp.e58815 [Peer Reviewed Journal]

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25
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A SNP panel and online tool for checking genotype concordance through comparing QR codes

Du, Yonghong ; Martin, Joshua S ; Mcgee, John ; Yang, Yuchen ; Liu, Eric Yi ; Sun, Yingrui ; Geihs, Matthias ; Kong, Xuejun ; Zhou, Eric Lingfeng ; Li, Yun ; Huang, Jie

PloS one, 2017, Vol.12(9), pp.e0182438 [Peer Reviewed Journal]

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26
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TheSNPpit-A High Performance Database System for Managing Large Scale SNP Data

Groeneveld, Eildert ; Lichtenberg, Helmut

PloS one, 2016, Vol.11(10), pp.e0164043 [Peer Reviewed Journal]

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27
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Contribution of common genetic variants to obesity and obesity-related traits in mexican children and adults

León-Mimila, Paola ; Villamil-Ramírez, Hugo ; Villalobos-Comparán, Marisela ; Villarreal-Molina, Teresa ; Romero-Hidalgo, Sandra ; López-Contreras, Blanca ; Gutiérrez-Vidal, Roxana ; Vega-Badillo, Joel ; Jacobo-Albavera, Leonor ; Posadas-Romeros, Carlos ; Canizalez-Román, Adrián ; Río-Navarro, Blanca Del ; Campos-Pérez, Francisco ; Acuña-Alonzo, Victor ; Aguilar-Salinas, Carlos ; Canizales-Quinteros, Samuel

PloS one, 2013, Vol.8(8), pp.e70640 [Peer Reviewed Journal]

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28
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Effect of SNPs on creatine kinase structure and function: identifying potential molecular mechanisms for possible creatine kinase deficiency diseases

Li, Chang ; Zhang, Qian ; Hu, Wei-Jiang ; Mu, Hang ; Lin, Zong ; Ma, Long ; Park, Yong-Doo ; Zhou, Hai-Meng

PloS one, 2012, Vol.7(9), pp.e45949 [Peer Reviewed Journal]

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29
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RNA-Seq Uncovers SNPs and Alternative Splicing Events in Asian Lotus (Nelumbo nucifera)

Yang, Mei ; Xu, Liming ; Liu, Yanling ; Yang, Pingfang

PloS one, 2015, Vol.10(4), pp.e0125702 [Peer Reviewed Journal]

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30
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Functional consequences of a novel variant of PCSK1

Pickett, Lindsay A ; Yourshaw, Michael ; Albornoz, Valeria ; Chen, Zijun ; Solorzano-Vargas, R Sergio ; Nelson, Stanley F ; Martín, Martín G ; Lindberg, Iris

PloS one, 2013, Vol.8(1), pp.e55065 [Peer Reviewed Journal]

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31
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A Single Nucleotide Polymorphism within the Interferon Gamma Receptor 2 Gene Perfectly Coincides with Polledness in Holstein Cattle

Glatzer, Sabrina ; Merten, Nina Johanna ; Dierks, Claudia ; Wöhlke, Anne ; Philipp, Ute ; Distl, Ottmar

PloS one, 2013, Vol.8(6), pp.e67992 [Peer Reviewed Journal]

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32
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Effects of genetic variants in the TSPO gene on protein structure and stability

Milenkovic, Vladimir M ; Bader, Stefanie ; Sudria-Lopez, Daniel ; Siebert, Ramona ; Brandl, Caroline ; Nothdurfter, Caroline ; Weber, Bernhard H F ; Rupprecht, Rainer ; Wetzel, Christian H

PloS one, 2018, Vol.13(4), pp.e0195627 [Peer Reviewed Journal]

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33
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Regional Differences in the Accumulation of SNPs on the Male-Specific Portion of the Human Y Chromosome Replicate Autosomal Patterns: Implications for Genetic Dating

Trombetta, Beniamino ; D'Atanasio, Eugenia ; Massaia, Andrea ; Myres, Natalie M ; Scozzari, Rosaria ; Cruciani, Fulvio ; Novelletto, Andrea

PloS one, 2015, Vol.10(7), pp.e0134646 [Peer Reviewed Journal]

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34
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Variation revealed by SNP genotyping and morphology provides insight into the origin of the tomato

Blanca, Jose ; Cañizares, Joaquín ; Cordero, Laura ; Pascual, Laura ; Diez, María José ; Nuez, Fernando

PloS one, 2012, Vol.7(10), pp.e48198 [Peer Reviewed Journal]

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35
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Influence of genetic variation on plasma protein levels in older adults using a multi-analyte panel

Kim, Sungeun ; Swaminathan, Shanker ; Inlow, Mark ; Risacher, Shannon L ; Nho, Kwangsik ; Shen, Li ; Foroud, Tatiana M ; Petersen, Ronald C ; Aisen, Paul S ; Soares, Holly ; Toledo, Jon B ; Shaw, Leslie M ; Trojanowski, John Q ; Weiner, Michael W ; Mcdonald, Brenna C ; Farlow, Martin R ; Ghetti, Bernardino ; Saykin, Andrew J

PloS one, 2013, Vol.8(7), pp.e70269 [Peer Reviewed Journal]

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36
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SNP discovery from transcriptome of the swimbladder of Takifugu rubripes

Cui, Jun ; Wang, Hongdi ; Liu, Shikai ; Zhu, Lifu ; Qiu, Xuemei ; Jiang, Zhiqiang ; Wang, Xiuli ; Liu, Zhanjiang

PloS one, 2014, Vol.9(3), pp.e92502 [Peer Reviewed Journal]

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Genome-Wide Association Study between Single Nucleotide Polymorphisms and Flight Speed in Nellore Cattle

Valente, Tiago Silva ; Baldi, Fernando ; Sant'Anna, Aline Cristina ; Albuquerque, Lucia Galvão ; Paranhos Da Costa, Mateus José Rodrigues

PloS one, 2016, Vol.11(6), pp.e0156956 [Peer Reviewed Journal]

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