Zobrazeno 1 - 10
of 33
pro vyhledávání: '"William K M, Lai"'
Autor:
Danying Shao, Gretta D. Kellogg, Ali Nematbakhsh, Prashant K. Kuntala, Shaun Mahony, B. Franklin Pugh, William K. M. Lai
Publikováno v:
Genome Biology, Vol 23, Iss 1, Pp 1-19 (2022)
Abstract Reproducibility is a significant challenge in (epi)genomic research due to the complexity of experiments composed of traditional biochemistry and informatics. Recent advances have exacerbated this as high-throughput sequencing data is genera
Externí odkaz:
https://doaj.org/article/93f192143cdd412eabc602cca0499d35
Autor:
Chenxi Qiu, Huiyan Jin, Irina Vvedenskaya, Jordi Abante Llenas, Tingting Zhao, Indranil Malik, Alex M. Visbisky, Scott L. Schwartz, Ping Cui, Pavel Čabart, Kang Hoo Han, William K. M. Lai, Richard P. Metz, Charles D. Johnson, Sing-Hoi Sze, B. Franklin Pugh, Bryce E. Nickels, Craig D. Kaplan
Publikováno v:
Genome Biology, Vol 21, Iss 1, Pp 1-31 (2020)
Abstract Background The majority of eukaryotic promoters utilize multiple transcription start sites (TSSs). How multiple TSSs are specified at individual promoters across eukaryotes is not understood for most species. In Saccharomyces cerevisiae, a p
Externí odkaz:
https://doaj.org/article/46daed7ec1cd470898bd8a2909e78d14
Autor:
Qi Sun, Ali Nematbakhsh, Prashant K Kuntala, Gretta Kellogg, B Franklin Pugh, William K M Lai
Publikováno v:
PLoS Computational Biology, Vol 18, Iss 2, p e1009859 (2022)
The ability to aggregate experimental data analysis and results into a concise and interpretable format is a key step in evaluating the success of an experiment. This critical step determines baselines for reproducibility and is a key requirement for
Externí odkaz:
https://doaj.org/article/a4fc962faa9c4ea681facf0acada2c33
Publikováno v:
Nature Communications, Vol 9, Iss 1, Pp 1-13 (2018)
While ChIP-exo is low noise and highly informative regarding genome-wide binding proteins, libraries are difficult to construct. Here the authors present a simplified ChIP-exo method for high-resolution detection of interactions.
Externí odkaz:
https://doaj.org/article/34102353774e422985f66199e415101b
Autor:
Luca Mariani, Katherine Novitzky, Prashant K. Kuntala, Sarah N Dweikat, Joshua Mairose, Edwin R. Smith, B. Franklin Pugh, Daniela James, Martha L. Bulyk, Sabrina K. Phanor, James T. Anderson, Thomas R. Blanda, Ali Shilatifard, Gerson Rothschild, Michael-Christopher Keogh, William K. M. Lai, Zibo Zhao, Katelyn Mistretta, Bryan J. Venters, Eileen McAnarney, Uttiya Basu, Wanwei Zhang, Avani P. Shah, Matthew J. Rossi, Kylie Bocklund
Publikováno v:
Genome Research. 31:1663-1679
Antibodies offer a powerful means to interrogate specific proteins in a complex milieu. However, antibody availability and reliability can be problematic, whereas epitope tagging can be impractical in many cases. To address these limitations, the Pro
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::5ba63432dd03ae4491baf6094c50f2e2
https://doi.org/10.1101/gr.275472.121
https://doi.org/10.1101/gr.275472.121
Autor:
William K. M. Lai, Katelyn Mistretta, B. Franklin Pugh, Guray Kuzu, Gretta Kellogg, Ann V. Basting, David J. Rocco, Chitvan Mittal, Shaun Mahony, Nitika Badjatia, Emily S. Perkinson, Joshua Mairose, Kylie Bocklund, Nina Farrell, Matthew J. Rossi, Prashant K. Kuntala, Thomas R. Blanda, Naomi Yamada
Publikováno v:
Nature
The genome-wide architecture of chromatin-associated proteins that maintains chromosome integrity and gene regulation is not well defined. Here we use chromatin immunoprecipitation, exonuclease digestion and DNA sequencing (ChIP–exo/seq)1,2 to defi
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::abc6689a351c30d7421ba441e71bcddb
https://doi.org/10.1038/s41586-021-03314-8
https://doi.org/10.1038/s41586-021-03314-8
Autor:
William K. M. Lai, Shaun Mahony, Ali Nematbakhsh, B. F. Pugh, D. Shao, Gretta Kellogg, P. Kuntala
Publikováno v:
Genome Biology. 23
Reproducibility is a significant challenge in (epi)genomic research due to the complexity of experiments composed of traditional biochemistry and informatics. Recent advances have exacerbated this challenge as high-throughput sequencing data is gener
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::81010390ce6d38772222fd4dee7119c3
https://doi.org/10.1186/s13059-022-02671-5
https://doi.org/10.1186/s13059-022-02671-5
Autor:
Jordan, John, Javaid, Jabbar, Nitika, Badjatia, Matthew J, Rossi, William K M, Lai, B Franklin, Pugh
Publikováno v:
Genome research. 32(5)
When detected at single-base-pair resolution, the genome-wide location, occupancy level, and structural organization of DNA-binding proteins provide mechanistic insights into genome regulation. Here we use ChIP-exo to provide a near-base-pair resolut
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=pmid________::514c9c8c8a673e8909059bb87f096b7b
https://pubmed.ncbi.nlm.nih.gov/35483960
https://pubmed.ncbi.nlm.nih.gov/35483960
Autor:
Qi Sun, Ali Nematbakhsh, Prashant K. Kuntala, Gretta Kellogg, B. Franklin Pugh, William K. M. Lai
The ability to aggregate experimental data analysis and results into a concise and interpretable format is a key step in evaluating the success of an experiment. This critical step determines baselines for reproducibility and is a key requirement for
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::de79ced6bdddf69fdec3e04afba7b32e
