Health disparities research is enabled by data diversity but requires much tighter integration of collaborative efforts

af Cazier, Jean-Baptiste, Mainzer, Liudmila Sergeevna, Ge, Weihao, Žurauskienė, Justina, Madak-Erdogan, Zeynep
Udgivet i J Glob Health (2020)

An assessment of true and false positive detection rates of stepwise epistatic model selection as a function of sample size and number of markers

af Chen, Angela H., Ge, Weihao, Metcalf, William, Jakobsson, Eric, Mainzer, Liudmila Sergeevna, Lipka, Alexander E.
Udgivet i Heredity (Edinb) (2018)

Simulating Next-Generation Sequencing Datasets from Empirical Mutation and Sequencing Models

af Stephens, Zachary D., Hudson, Matthew E., Mainzer, Liudmila S., Taschuk, Morgan, Weber, Matthew R., Iyer, Ravishankar K.
Udgivet i PLoS One (2016)

GABAC: an arithmetic coding solution for genomic data

af Voges, Jan, Paridaens, Tom, Müntefering, Fabian, Mainzer, Liudmila S, Bliss, Brian, Yang, Mingyu, Ochoa, Idoia, Fostier, Jan, Ostermann, Jörn, Hernaez, Mikel
Udgivet i Bioinformatics (2020)

Managing genomic variant calling workflows with Swift/T

af Ahmed, Azza E., Heldenbrand, Jacob, Asmann, Yan, Fadlelmola, Faisal M., Katz, Daniel S., Kendig, Katherine, Kendzior, Matthew C., Li, Tiffany, Ren, Yingxue, Rodriguez, Elliott, Weber, Matthew R., Wozniak, Justin M., Zermeno, Jennie, Mainzer, Liudmila S.
Udgivet i PLoS One (2019)

Identification of missing variants by combining multiple analytic pipelines

af Ren, Yingxue, Reddy, Joseph S., Pottier, Cyril, Sarangi, Vivekananda, Tian, Shulan, Sinnwell, Jason P., McDonnell, Shannon K., Biernacka, Joanna M., Carrasquillo, Minerva M., Ross, Owen A., Ertekin-Taner, Nilüfer, Rademakers, Rosa, Hudson, Matthew, Mainzer, Liudmila Sergeevna, Asmann, Yan W.
Udgivet i BMC Bioinformatics (2018)

Recommendations for performance optimizations when using GATK3.8 and GATK4

af Heldenbrand, Jacob R, Baheti, Saurabh, Bockol, Matthew A, Drucker, Travis M, Hart, Steven N, Hudson, Matthew E, Iyer, Ravishankar K, Kalmbach, Michael T, Kendig, Katherine I, Klee, Eric W, Mattson, Nathan R, Wieben, Eric D, Wiepert, Mathieu, Wildman, Derek E, Mainzer, Liudmila S
Udgivet i BMC Bioinformatics (2019)

Correction to: Recommendations for performance optimizations when using GATK3.8 and GATK4

af Heldenbrand, Jacob R., Baheti, Saurabh, Bockol, Matthew A., Drucker, Travis M., Hart, Steven N., Hudson, Matthew E., Iyer, Ravishankar K., Kalmbach, Michael T., Kendig, Katherine I., Klee, Eric W., Mattson, Nathan R., Wieben, Eric D., Wiepert, Mathieu, Wildman, Derek E., Mainzer, Liudmila S.
Udgivet i BMC Bioinformatics (2019)

Impact of variant-level batch effects on identification of genetic risk factors in large sequencing studies

af Wickland, Daniel P., Ren, Yingxue, Sinnwell, Jason P., Reddy, Joseph S., Pottier, Cyril, Sarangi, Vivekananda, Carrasquillo, Minerva M., Ross, Owen A., Younkin, Steven G., Ertekin-Taner, Nilüfer, Rademakers, Rosa, Hudson, Matthew E., Mainzer, Liudmila Sergeevna, Biernacka, Joanna M., Asmann, Yan W.
Udgivet i PLoS One (2021)

Sentieon DNASeq Variant Calling Workflow Demonstrates Strong Computational Performance and Accuracy

af Kendig, Katherine I., Baheti, Saurabh, Bockol, Matthew A., Drucker, Travis M., Hart, Steven N., Heldenbrand, Jacob R., Hernaez, Mikel, Hudson, Matthew E., Kalmbach, Michael T., Klee, Eric W., Mattson, Nathan R., Ross, Christian A., Taschuk, Morgan, Wieben, Eric D., Wiepert, Mathieu, Wildman, Derek E., Mainzer, Liudmila S.
Udgivet i Front Genet (2019)

Organizing and running bioinformatics hackathons within Africa: The H3ABioNet cloud computing experience

af Ahmed, Azza E., Mpangase, Phelelani T., Panji, Sumir, Baichoo, Shakuntala, Souilmi, Yassine, Fadlelmola, Faisal M., Alghali, Mustafa, Aron, Shaun, Bendou, Hocine, De Beste, Eugene, Mbiyavanga, Mamana, Souiai, Oussema, Yi, Long, Zermeno, Jennie, Armstrong, Don, O'Connor, Brian D., Mainzer, Liudmila Sergeevna, Crusoe, Michael R., Meintjes, Ayton, Van Heusden, Peter, Botha, Gerrit, Joubert, Fourie, Jongeneel, C. Victor, Hazelhurst, Scott, Mulder, Nicola
Udgivet i AAS Open Res (2019)

Developing reproducible bioinformatics analysis workflows for heterogeneous computing environments to support African genomics

af Baichoo, Shakuntala, Souilmi, Yassine, Panji, Sumir, Botha, Gerrit, Meintjes, Ayton, Hazelhurst, Scott, Bendou, Hocine, Beste, Eugene de, Mpangase, Phelelani T., Souiai, Oussema, Alghali, Mustafa, Yi, Long, O’Connor, Brian D., Crusoe, Michael, Armstrong, Don, Aron, Shaun, Joubert, Fourie, Ahmed, Azza E., Mbiyavanga, Mamana, Heusden, Peter van, Magosi, Lerato E., Zermeno, Jennie, Mainzer, Liudmila Sergeevna, Fadlelmola, Faisal M., Jongeneel, C. Victor, Mulder, Nicola
Udgivet i BMC Bioinformatics (2018)

Assessing computational genomics skills: Our experience in the H3ABioNet African bioinformatics network

af Jongeneel, C. Victor, Achinike-Oduaran, Ovokeraye, Adebiyi, Ezekiel, Adebiyi, Marion, Adeyemi, Seun, Akanle, Bola, Aron, Shaun, Ashano, Efejiro, Bendou, Hocine, Botha, Gerrit, Chimusa, Emile, Choudhury, Ananyo, Donthu, Ravikiran, Drnevich, Jenny, Falola, Oluwadamila, Fields, Christopher J., Hazelhurst, Scott, Hendry, Liesl, Isewon, Itunuoluwa, Khetani, Radhika S., Kumuthini, Judit, Kimuda, Magambo Phillip, Magosi, Lerato, Mainzer, Liudmila Sergeevna, Maslamoney, Suresh, Mbiyavanga, Mamana, Meintjes, Ayton, Mugutso, Danny, Mpangase, Phelelani, Munthali, Richard, Nembaware, Victoria, Ndhlovu, Andrew, Odia, Trust, Okafor, Adaobi, Oladipo, Olaleye, Panji, Sumir, Pillay, Venesa, Rendon, Gloria, Sengupta, Dhriti, Mulder, Nicola
Udgivet i PLoS Comput Biol (2017)