Results 21 to 30 of about 143,667 (204)

Leveraging deep phenotyping from health check-up cohort with 10,000 Korean individuals for phenome-wide association study of 136 traits

Scientific Reports, 2022
The expanding use of the phenome-wide association study (PheWAS) faces challenges in the context of using International Classification of Diseases billing codes for phenotype definition, imbalanced study population ethnicity, and constrained application ...
Eun Kyung Choe, Manu Shivakumar, Anurag Verma, Shefali Setia Verma, Seung Ho Choi, Joo Sung Kim, Dokyoon Kim   +6 more
doaj   +1 more source

Deep scanning lysine metabolism in Escherichia coli

Molecular Systems Biology, 2018
Our limited ability to predict genotype–phenotype relationships has called for strategies that allow testing of thousands of hypotheses in parallel. Deep scanning mutagenesis has been successfully implemented to map genotype–phenotype relationships at a ...
Marcelo C Bassalo, Andrew D Garst, Alaksh Choudhury, William C Grau, Eun J Oh, Eileen Spindler, Tanya Lipscomb, Ryan T Gill   +7 more
doaj   +1 more source

The Medaka Inbred Kiyosu-Karlsruhe (MIKK) panel

Genome Biology, 2022
Background Unraveling the relationship between genetic variation and phenotypic traits remains a fundamental challenge in biology. Mapping variants underlying complex traits while controlling for confounding environmental factors is often problematic. To
Tomas Fitzgerald, Ian Brettell, Adrien Leger, Nadeshda Wolf, Natalja Kusminski, Jack Monahan, Carl Barton, Cathrin Herder, Narendar Aadepu, Jakob Gierten, Clara Becker, Omar T. Hammouda, Eva Hasel, Colin Lischik, Katharina Lust, Natalia Sokolova, Risa Suzuki, Erika Tsingos, Tinatini Tavhelidse, Thomas Thumberger, Philip Watson, Bettina Welz, Nadia Khouja, Kiyoshi Naruse, Ewan Birney, Joachim Wittbrodt, Felix Loosli   +26 more
doaj   +1 more source

Genotype to phenotype mapping and the fitness landscape of the E. coli lac promoter. [PDF]

PLoS ONE, 2013
Genotype-to-phenotype maps and the related fitness landscapes that include epistatic interactions are difficult to measure because of their high dimensional structure.
Jakub Otwinowski, Ilya Nemenman
doaj   +1 more source

Histopathological Image QTL Discovery of Immune Infiltration Variants

iScience, 2018
Summary: Genotype-to-phenotype association studies typically use macroscopic physiological measurements or molecular readouts as quantitative traits. There are comparatively few suitable quantitative traits available between cell and tissue length scales,
Joseph D. Barry, Maud Fagny, Joseph N. Paulson, Hugo J.W.L. Aerts, John Platig, John Quackenbush   +5 more
doaj   +1 more source

Mapping information-rich genotype-phenotype landscapes with genome-scale Perturb-seq

bioRxiv, 2021
A central goal of genetics is to define the relationships between genotypes and phenotypes. High-content phenotypic screens such as Perturb-seq (pooled CRISPR-based screens with single-cell RNA-sequencing readouts) enable massively parallel functional ...
J. Replogle, R. Saunders, Angela N. Pogson, Jeffrey A. Hussmann, A. LeNail, Alina Guna, Lauren G. Mascibroda, Eric J. Wagner, K. Adelman, G. Lithwick-Yanai, Nika Iremadze, Florian C. Oberstrass, D. Lipson, J. L. Bonnar, M. Jost, Thomas M. Norman, J. Weissman   +16 more
semanticscholar   +1 more source

Using association mapping in teosinte to investigate the function of maize selection-candidate genes. [PDF]

PLoS ONE, 2009
BACKGROUND:Large-scale screens of the maize genome identified 48 genes that show the putative signature of artificial selection during maize domestication or improvement.
Allison L Weber, Qiong Zhao, Michael D McMullen, John F Doebley   +3 more
doaj   +1 more source

Single-cell genotype-phenotype mapping identifies therapeutic vulnerabilities in VEXAS syndrome

bioRxiv
Somatic evolution leads to the emergence of clonal diversity across tissues with broad implications for human health. A striking example of somatic evolution is the VEXAS (Vacuoles E1 enzyme X-linked Autoinflammatory Somatic) syndrome, caused by somatic ...
S. Ganesan, Rebecca M. Murray, Jesus Sotelo, Elliot O. Eton, Kouhei Takashima, Theo Botella, Kai Beattie, Alyssa C. Indart, Nada Chraiki, C. Croizier, Franco Izzo, Catherine Potenski, Samuele G. Marro, Zhijie Wu, Shouguo Gao, Neal S. Young, John D. Blair, R. Satija, B. Terrier, M. Heiblig, Ivan Raimondi, E. Papapetrou, P. Sujobert, O. Kosmider, David B. Beck, D. Landau   +25 more
semanticscholar   +1 more source

A Bilevel Optimization Strategy for the Mapping Process in Grammatical Evolution

Mathematics
Grammatical Evolution is a technique for evolving structured solutions using a genotype-to-phenotype mapping based on formal grammar. Optimization is typically performed on the genotype values.
Blanca Verónica Zuñiga-Núñez, Erick Israel Guerra-Hernández, Patricia Batres-Mendoza, Itandehui Belem Gallegos-Velasco, Marco Aurelio Sotelo-Figueroa   +4 more
doaj   +1 more source

Open access resources for genome-wide association mapping in rice

Nature Communications, 2016
Understanding the link between genotype and phenotype can facilitate efforts by breeders to utilize natural variation and develop new crop varieties. Here the authors present a diverse germplasm collection, a high-density genotyping array and a set of ...
Susan R. McCouch, Mark H. Wright, Chih-Wei Tung, Lyza G. Maron, Kenneth L. McNally, Melissa Fitzgerald, Namrata Singh, Genevieve DeClerck, Francisco Agosto-Perez, Pavel Korniliev, Anthony J. Greenberg, Ma. Elizabeth B. Naredo, Sheila Mae Q. Mercado, Sandra E. Harrington, Yuxin Shi, Darcy A. Branchini, Paula R. Kuser-Falcão, Hei Leung, Kowaru Ebana, Masahiro Yano, Georgia Eizenga, Anna McClung, Jason Mezey   +22 more
doaj   +1 more source