bioconductor: snpStats | Projects

10.1016/j.csbj.2019.10.003

MaizeSNPDB: A comprehensive database for efficient retrieve and analysis of SNPs among 1210 maize lines
Cited by: 9
Author(s): Wei Zhou, Lei Wang, Wenming Zheng, Wen Yao
Software Mentions: 20
Published: almost 6 years ago

10.1186/s13073-021-00907-w

Impact of rare and common genetic variation in the interleukin-1 pathway on human cytokine responses
Cited by: 5
Author(s): Rosanne C. van Deuren, Peer Arts, Giulio Cavalli, Martin Jaeger, Marloes Steehouwer, Maartje van de Vorst, Christian Gilissen, Leo A. B. Joosten, Charles A. Dinarello, Musa M. Mhlanga, Vinod Kumar, Mihai G. Netea, Frank L. van de Veerdonk, Alexander Hoischen
Software Mentions: 14
Published: over 3 years ago

10.18632/oncotarget.6716

Integrative bioinformatic analyses of an oncogenomic profile reveal the biology of endometrial cancer and guide drug discovery
Cited by: 5
Author(s): Henry Sung Ching Wong, Yung‐Shun Juan, Mei-Shin Wu, Yan Feng Zhang, Yi‐Hsiang Hsu, Huang-Hui Chen, Weimin Liu, Wei Chiao Chang
Software Mentions: 13
Published: almost 9 years ago

10.3389/fonc.2014.00147

An Integrative Analysis of Meningioma Tumors Reveals the Determinant Genes and Pathways of Malignant Transformation
Cited by: 7
Author(s): José Carlos Iglesias Gómez, Adrián Mosquera Orgueira
Software Mentions: 11
Published: over 10 years ago

10.1371/journal.pgen.1008766

Simultaneous SNP selection and adjustment for population structure in high dimensional prediction models
Cited by: 5
Author(s): Sahir Bhatnagar, Yi Yang, Tianyuan Lu, Erwin Schurr, J. Concepción Loredo-Osti, Marie Forest, Karim Oualkacha, Celia M.T. Greenwood
Software Mentions: 10
Published: over 4 years ago

10.1186/s12863-020-00921-8

Genome wide analysis reveals genetic divergence between Goldsinny wrasse populations
Cited by: 5
Author(s): Eva Jansson, François Besnier, Ketil Malde, Carl André, Geir Dahle, Kevin A. Glover
Software Mentions: 8
Published: about 4 years ago

10.1186/s12859-015-0608-y

affy2sv: an R package to pre-process Affymetrix CytoScan HD and 750K arrays for SNP, CNV, inversion and mosaicism calling
Cited by: 3
Author(s): Carles Hernandez‐Ferrer, Inés Quintela, Katharina Danielski, Ángel Carracedo, Luis A. Pérez‐Jurado, Juan R. González
Software Mentions: 7
Published: over 9 years ago

10.3389/fgene.2020.00936

NRG1, PIP4K2A, and HTR2C as Potential Candidate Biomarker Genes for Several Clinical Subphenotypes of Depression and Bipolar Disorder
Cited by: 13
Author(s): Аnastasia Levchenko, N. Vyalova, Timur Nurgaliev, Ivan V Pozhidaev, German G. Simutkin, Н. А. Бохан, Светлана Иванова
Software Mentions: 7
Published: about 4 years ago

10.1371/journal.pgen.1005908

Insight into Genotype-Phenotype Associations through eQTL Mapping in Multiple Cell Types in Health and Immune-Mediated Disease
Cited by: 83
Author(s): James E. Peters, Paul Lyons, James C. Lee, Alison F. Richard, Mary D Fortune, Paul Newcombe, Sylvia Richardson, Kenneth G. C. Smith
Software Mentions: 6
Published: over 8 years ago

10.7705/biomedica.4753

Análisis de la variabilidad genética de una muestra de la población de Bogotá: hacia la constitución de un mapa de haplotipos
Cited by: 2
Author(s): Juan David Caicedo, Alejandro Cáceres, Carlos E. Arboleda-Bustos, María Fernanda Mahecha, Jenny Ortega, Gonzalo Arboleda, Humberto Arboleda
Software Mentions: 5
Published: about 5 years ago

10.1371/journal.pgen.1006587

Genetic variants alter T-bet binding and gene expression in mucosal inflammatory disease
Cited by: 38
Author(s): Katrina Soderquest, Arnulf Hertweck, Claudia Giambartolomei, Stephen Henderson, Mohamed Rosmawati, Rimma Goldberg, Esperanza Perucha, Lude Franke, Javier Herrero, Vincent Plagnol, Richard G. Jenner, Graham M. Lord
Software Mentions: 5
Published: over 7 years ago

10.1186/s13059-015-0716-z

Genetic properties of the MAGIC maize population: a new platform for high definition QTL mapping in Zea mays
Cited by: 191
Author(s): Matteo Dell’Acqua, Daniel M. Gatti, G. Pea, Federica Cattonaro, Frederik Coppens, Gabriele Magris, Aye L. Hlaing, Htay Htay Aung, Hilde Nelissen, Joke Baute, Elisabetta Frascaroli, Gary A. Churchill, Dirk Inzé, Michèle Morgante, Mario Enrico Pè
Software Mentions: 5
Published: about 9 years ago

10.1186/s13015-019-0157-4

Adjacency-constrained hierarchical clustering of a band similarity matrix with application to genomics
Cited by: 17
Author(s): Christophe Ambroise, Alia Dehman, Pierre Neuvial, Guillem Rigaill, Nathalie Vialaneix
Software Mentions: 5
Published: almost 5 years ago

10.1038/s41438-020-00370-5

Genomic prediction of fruit texture and training population optimization towards the application of genomic selection in apple
Cited by: 31
Author(s): Morgane Roth, Hélène Muranty, Mario Di Guardo, Walter Guerra, Andrea Patocchi, Fabrizio Costa
Software Mentions: 4
Published: about 4 years ago

10.1186/s40104-016-0089-5

Selection signatures in Canchim beef cattle
Cited by: 23
Author(s): Ismael Urbinati, Nedenia Bonvino Stafuzza, Marcos T. Oliveira, T.C.S. Chud, R. H. Higa, Luciana Correia de Almeida Regitano, M. M. de Alencar, Marcos Eli Buzanskas, Danísio Prado Munari
Software Mentions: 4
Published: over 8 years ago

10.1371/journal.pone.0139642

Assessing the Power of Exome Chips
Cited by: 6
Author(s): Christian M. Page, Sergio E. Baranzini, Bjørn-Helge Mevik, Steffan Daniël Bos, Hanne F. Harbo, Bettina Kulle Andreassen
Software Mentions: 4
Published: about 9 years ago

10.1371/journal.pone.0157739

Ancient Haplotypes at the 15q24.2 Microdeletion Region Are Linked to Brain Expression of MAN2C1 and Children's Intelligence
Cited by: 2
Author(s): Alejandro Cáceres, Tõnu Esko, Irene Pappa, Armand Gutiérrez, Maria-José Lopez-Espinosa, Sabrina Llop, Mariona Bustamante, Henning Tiemeier, Andres Metspalu, Peter K. Joshi, James F. Wilsonx, Judith Reina-Castillón, Jean Shin, Zdenka Pausová, Tomáš Paus, Jordi Sunyer, Luis A. Pérez‐Jurado, Juan R. González
Software Mentions: 4
Published: over 8 years ago

10.1016/j.xpro.2020.100061

Protocol for Projecting Allele Frequency Change under Future Climate Change at Adaptive-Associated Loci
Cited by: 4
Author(s): Meghan Blumstein, Andrew D. Richardson, David J. Weston, Jin Zhang, Wellington Muchero, Robin Hopkins
Software Mentions: 3
Published: about 4 years ago

10.3389/fpsyt.2020.564239

Genome-Wide Association Study of Smoking Behavior Traits in a Chinese Han Population
Cited by: 5
Author(s): Meng Li, Ying Chen, Jianhua Yao, Sheming Lu, Ying Guan, Yuqiong Xu, Qiang Liu, Silong Sun, Qi-Li Mi, Junpu Mei, Xuemei Li, Miao Ming-ming, Shancen Zhao, Zhouhai Zhu
Software Mentions: 3
Published: about 4 years ago

10.3390/biology9080222

Artificial Neural Networks Model for Predicting Type 2 Diabetes Mellitus Based on VDR Gene FokI Polymorphism, Lipid Profile and Demographic Data
Cited by: 8
Author(s): Ma’mon M. Hatmal, Salim M. Abderrahman, Wajeha Nimer, Zaynab Al-Eisawi, Hamzeh J. Al‐Ameer, Mohammad A. I. Al-Hatamleh, Rohimah Mohamud, Walhan Alshaer
Software Mentions: 3
Published: about 4 years ago

10.1186/s12864-015-1384-9

Genome-wide analysis reveals population structure and selection in Chinese indigenous sheep breeds
Cited by: 108
Author(s): Caihong Wei, Huihua Wang, Gang Liu, Mingming Wu, Jiaxve Cao, Zhen Liu, Ruizao Liu, Fuping Zhao, Li Zhang, Jian Lü, Chousheng Liu, Lixin Du
Software Mentions: 3
Published: over 9 years ago

10.15252/emmm.202114133

<i>HSD17B7</i> gene in self‐renewal and oncogenicity of keratinocytes from Black versus White populations
Cited by: 8
Author(s): Xiaoying Xu, Beatrice Tassone, Paola Ostano, Atul Katarkar, Tatiana Proust, Jean-Marc Joseph, Chiara Riganti, Giovanna Chiorino, Zoltán Kutalik, Karine Lefort, G. Paolo Dotto
Software Mentions: 2
Published: over 3 years ago

10.1186/s12864-018-4615-z

New insights into the phylogenetics and population structure of the prairie falcon (Falco mexicanus)
Cited by: 24
Author(s): Jacqueline Doyle, Douglas A. Bell, Peter H. Bloom, Gavin Emmons, Amy Fesnock, Todd E. Katzner, Larry LaPré, Kolbe Leonard, Phillip SanMiguel, Rick Westerman, J. Andrew DeWoody
Software Mentions: 2
Published: over 6 years ago

10.1186/s12864-018-5263-z

When pitch adds to volume: coregulation of transcript diversity predicts gene function
Cited by: 0
Author(s): Alejandro Cáceres, Juan R. González
Software Mentions: 2
Published: almost 6 years ago

10.3390/ijerph18126215

Genetic Variation and Cardiovascular Risk Factors: A Cohort Study on Migrants from the Former Soviet Union and a Native German Population
Cited by: 1
Author(s): Marianne Huebner, Daniela Börnigen, Andreas Deckert, Rolf Holle, Christa Meisinger, Martina Müller‐Nurasyid, Annette Peters, Wolfgang Rathmann, Heiko Becher
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0100924

Large-Scale East-Asian eQTL Mapping Reveals Novel Candidate Genes for LD Mapping and the Genomic Landscape of Transcriptional Effects of Sequence Variants
Cited by: 110
Author(s): Maiko Narahara, Koichiro Higasa, Seiji Nakamura, Yasuharu Tabara, Takahisa Kawaguchi, Miho Ishii, Kazuo Matsubara, Fumihiko Matsuda, Ryo Yamada
Software Mentions: 2
Published: over 10 years ago

10.3389/fgene.2020.558762

Association of the Lactase Persistence Haplotype Block With Disease Risk in Populations of European Descent
Cited by: 3
Author(s): Shannon E K Joslin, Blythe Durbin‐Johnson, Monica Britton, Matthew L. Settles, Ian F Korf, Danielle G. Lemay
Software Mentions: 2
Published: about 4 years ago

10.1371/journal.pone.0054997

Genetic Diversity in the Modern Horse Illustrated from Genome-Wide SNP Data
Cited by: 191
Author(s): Jessica L Petersen, James R. Mickelson, E. Gus Cothran, Lisa Andersson, J. Axelsson, E. Bailey, Danika L. Bannasch, M. M. Binns, Alexandre Secorun Borges, P. A. J. Brama, Artur da Câmara Machado, O. Distl, Michela Felicetti, Laura Y Fox-Clipsham, Kathryn Graves, Gerard Guérin, Bianca Haase, Telhisa Hasegawa, Karin Hemmann, E. W. Hill, Tosso Leeb, Gabriella Lindgren, Hannes Lohi, M. S. Lopes, Beatrice A. McGivney, Sofia Mikko, Nicholas Orr, M. C. T. Penedo, Richard J. Piercy, Marja Raekallio, Stefan Rieder, Knut Røed, Maurizio Silvestrelli, June Swinburne, Teruaki Tozaki, Mark D. Vaudin, Claire M. Wade, Molly E. McCue
Software Mentions: 2
Published: almost 12 years ago

10.1371/journal.pgen.1005633

Combined Genetic and Genealogic Studies Uncover a Large BAP1 Cancer Syndrome Kindred Tracing Back Nine Generations to a Common Ancestor from the 1700s
Cited by: 74
Author(s): Michele Carbone, Erin Flores, Mitsuru Emi, Todd A. Johnson, Tatsuhiko Tsunoda, Dusty Behner, Harriet Hoffman, Mary Hesdorffer, Masaki Nasu, Andrea Napolitano, Amy Powers, Michael Minaai, Francine Baumann, Peter Bryant-Greenwood, Olivia Lauk, Michaela B. Kirschner, Walter Weder, Isabelle Opitz, Harvey I. Pass, Giovanni Gaudino, Sandra Pastorino, Haining Yang
Software Mentions: 2
Published: almost 9 years ago

10.1186/s12864-019-5520-9

Genome Association Study for Visual Scores in Nellore Cattle Measured at Weaning
Cited by: 12
Author(s): Luis Carreño, Matilde da Conceição Pessoa, Rafael Espigolan, Luciana Takada, Tiago Bresolin, Lígia Cavani, Fernando Baldi, Roberto Carvalheiro, Lúcia Galvão de Albuquerque, Ricardo da Fonseca
Software Mentions: 2
Published: over 5 years ago

10.3390/jpm10040220

Impact of Single-Nucleotide Polymorphisms of CTLA-4, CD80 and CD86 on the Effectiveness of Abatacept in Patients with Rheumatoid Arthritis
Cited by: 3
Author(s): N Márquez Pete, María Montoro, Cristina Pérez Ramírez, Ángel Puerto Martín, Juan Enrique Martínez de la Plata, Fernando Martínez Martínez, Rafael Cáliz, Abdelali Daddaoua, María del Carmen Ramírez Tortosa, Alberto Jiménez Morales
Software Mentions: 1
Published: almost 4 years ago

10.1186/s12920-021-00942-x

New susceptibility alleles associated with severe coronary artery stenosis in the Lebanese population
Cited by: 4
Author(s): Victor Wakim, Elie Abi Khalil, Angelique K. Salloum, Georges Khazen, Michella Ghassibe-Sabbagh, Pierre Zalloua
Software Mentions: 1
Published: over 3 years ago

10.6026/97320630016393

A short review on Genome-Wide Association Studies
Cited by: 4
Author(s): Xiaowen Cao, Li Xing, Hongbin He, Xuekui Zhang
Software Mentions: 1
Published: over 4 years ago

10.1242/bio.054932

Genome wide association study for the identification of genes associated with tail fat deposition in Chinese sheep breeds
Cited by: 14
Author(s): Caiye Zhu, Na Li, Heping Cheng, Youji Ma
Software Mentions: 1
Published: over 3 years ago

10.1371/journal.pone.0072802

Identification of a Susceptibility Locus for Severe Adolescent Idiopathic Scoliosis on Chromosome 17q24.3
Cited by: 58
Author(s): Atsushi Miyake, Ikuyo Kou, Yohei Takahashi, Todd A. Johnson, Yoji Ogura, Jin Dai, Xusheng Qiu, Atsushi Takahashi, Hua Jiang, Yan Huang, Katsuki Kono, Noriaki Kawakami, Koki Uno, Manabu Ito, Shohei Minami, Haruhisa Yanagida, Hiroshi Taneichi, Naoya Hosono, Taichi Tsuji, Teppei Suzuki, Hideki Sudo, Toshiaki Kotani, Ikuho Yonezawa, Michiaki Kubo, Tatsuhiko Tsunoda, Kota Watanabe, Kazuhiro Chiba, Yoshiaki Toyama, Yong Qiu, Morio Matsumoto, Shiro Ikegawa
Software Mentions: 1
Published: about 11 years ago

10.1371/journal.pone.0156914

Replication and Characterization of Association between ABO SNPs and Red Blood Cell Traits by Meta-Analysis in Europeans
Cited by: 22
Author(s): Stela McLachlan, Claudia Giambartolomei, Jon White, Pimphen Charoen, Andrew Wong, Chris Finan, Jorgen Engmann, Tina Shah, Micha Hersch, Clara Podmore, Alana Cavadino, Barbara J. Jefferis, Caroline Dale, Elina Hyppönen, Richard W Morris, Juan P. Casas, Meena Kumari, Yoav Ben-Shlomo, Tom R. Gaunt, Fotios Drenos, Claudia Langenberg, Diana Kuh, Mika Kivimäki, Rico Rueedi, Gérard Waeber, Aroon D. Hingorani, Jackie F. Price, Ann P. Walker
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0128688

Genome-Wide Specific Selection in Three Domestic Sheep Breeds
Cited by: 41
Author(s): Huihua Wang, Lili Zhang, Jiaxve Cao, Mingming Wu, Xiongfeng Ma, Zhen Liu, Ruizao Liu, Fuping Zhao, Caihong Wei, Lixin Du
Software Mentions: 1
Published: over 9 years ago

10.1371/journal.pone.0139413

Association between ST8SIA2 and the Risk of Schizophrenia and Bipolar I Disorder across Diagnostic Boundaries
Cited by: 23
Author(s): Sungwook Yang, Ik Soo Huh, Ji Hyun Baek, Eunyoung Cho, Mi Ji Choi, Seunghyong Ryu, Ji Sun Kim, Taesung Park, Kyooseob Ha, Kyung Sue Hong
Software Mentions: 1
Published: about 9 years ago

10.1371/journal.pone.0231162

A genetically unique Chinese cattle population shows evidence of common ancestry with wild species when analysed with a reduced ascertainment bias SNP panel
Cited by: 6
Author(s): Mario Barbato, Michael P. Reichel, Matilde Maria Passamonti, Wai Yee Low, Licia Colli, Rick Tearle, J. L. Williams, P. Ajmone Marsan
Software Mentions: 1
Published: over 4 years ago

10.3390/cancers12020283

The Association of IL-1 and HRAS Gene Polymorphisms with Breast Cancer Susceptibility in a Jordanian Population of Arab Descent: A Genotype–Phenotype Study
Cited by: 12
Author(s): Laith N. AL-Eitan, Bashar H. Al-Ahmad, Fouad Al-Momani
Software Mentions: 1
Published: almost 5 years ago

10.3389/fnagi.2019.00297

Genome-Wide Association Studies for Cerebrospinal Fluid Soluble TREM2 in Alzheimer’s Disease
Cited by: 22
Author(s): Changan Liu, Jun Yu
Software Mentions: 1
Published: about 5 years ago

10.3389/fgene.2018.00410

Genome-Wide Association and Mechanistic Studies Indicate That Immune Response Contributes to Alzheimer’s Disease Development
Cited by: 37
Author(s): Changan Liu, Jacqueline Chyr, Weiling Zhao, Yungang Xu, Zhiwei Ji, Hua Tan, Claudio Soto, Xiaobo Zhou
Software Mentions: 1
Published: about 6 years ago

10.3389/fgene.2016.00088

Fine-Mapping of 18q21.1 Locus Identifies Single Nucleotide Polymorphisms Associated with Nonsyndromic Cleft Lip with or without Cleft Palate
Cited by: 3
Author(s): Amit Mitra, Holly A.F. Stessman, Robert J. Schaefer, Wen Wang, Chad L. Myers, Brian G. Van Ness, Soraya Beiraghi
Software Mentions: 1
Published: over 8 years ago

10.1534/g3.119.400658

Dissecting Adaptive Traits with Nested Association Mapping: Genetic Architecture of Inflorescence Morphology in Sorghum
Cited by: 11
Author(s): Marcus O. Olatoye, Sandeep Marla, Zhenbin Hu, Sophie Bouchet, Ramasamy Perumal, Geoffrey P. Morris
Software Mentions: 1
Published: over 4 years ago

10.1002/gepi.22174

Assessing potential shared genetic aetiology between body mass index and sleep duration in 142,209 individuals
Cited by: 5
Author(s): Victoria Garfield, Ghazaleh Fatemifar, Caroline Dale, Melissa Smart, Yanchun Bao, Clare Llewellyn, Andrew Steptoe, Delilah Zabaneh, Meena Kumari
Software Mentions: 1
Published: almost 6 years ago

10.1186/s12711-017-0325-2

Tag SNP selection for prediction of tick resistance in Brazilian Braford and Hereford cattle breeds using Bayesian methods
Cited by: 28
Author(s): B. P. Sollero, Vinícius Silva Junqueira, Claudia Cristina Gulias Gomes, Alexandre Rodrigues Caetano, F. F. Cardoso
Software Mentions: 1
Published: over 7 years ago

10.1186/1751-0473-9-6

Identifying large sets of unrelated individuals and unrelated markers
Cited by: 19
Author(s): Kuruvilla Joseph Abraham, Clara Díaz
Software Mentions: 1
Published: over 10 years ago

10.1038/s41398-021-01288-9

Genome-wide gene-environment interactions in neuroticism: an exploratory study across 25 environments
Cited by: 12
Author(s): Josefin Werme, Sophie van der Sluis, Daniëlle Posthuma, Christiaan de Leeuw
Software Mentions: 1
Published: over 3 years ago

10.1093/hmg/ddv077

Integration of disease association and eQTL data using a Bayesian colocalisation approach highlights six candidate causal genes in immune-mediated diseases
Cited by: 125
Author(s): Hui Guo, Mary D Fortune, Oliver S. Burren, Ellen Schofield, John A. Todd, Chris Wallace
Software Mentions: 1
Published: over 9 years ago

10.3390/ijms22179277

Genomic Scan of Male Fertility Restoration Genes in a ‘Gülzow’ Type Hybrid Breeding System of Rye (Secale cereale L.)
Cited by: 6
Author(s): Nikolaj Vendelbo, Khalid Mahmood, Pernille Sarup, Peter Skov Kristensen, Jihad Orabi, A. Jahoor
Software Mentions: 1
Published: about 3 years ago

10.3390/jpm11060573

Influence of the FCGR2A rs1801274 and FCGR3A rs396991 Polymorphisms on Response to Abatacept in Patients with Rheumatoid Arthritis
Cited by: 7
Author(s): N Márquez Pete, María Montoro, Cristina Pérez Ramírez, Fernando Martínez Martínez, Juan Enrique Martínez de la Plata, Abdelali Daddaoua, Alberto Jiménez Morales
Software Mentions: 1
Published: over 3 years ago

Projects: bioconductor: snpStats

Papers Mentioning snpStats 51