Sequencing by avidity enables high accuracy with low reagent consumption

Autor: Sinan Arslan, Francisco J. Garcia, Minghao Guo, Matthew W. Kellinger, Semyon Kruglyak, Jake A. LeVieux, Adeline H. Mah, Haosen Wang, Junhua Zhao, Chunhong Zhou, Andrew Altomare, John Bailey, Matthew B. Byrne, Chiting Chang, Steve X. Chen, Byungrae Cho, Claudia N. Dennler, Vivian T. Dien, Derek Fuller, Ryan Kelley, Omid Khandan, Michael G. Klein, Michael Kim, Bryan R. Lajoie, Bill Lin, Yu Liu, Tyler Lopez, Peter T. Mains, Andrew D. Price, Samantha R. Robertson, Hermes Taylor-Weiner, Ramreddy Tippana, Austin B. Tomaney, Su Zhang, Minna Abtahi, Mark R. Ambroso, Rosita Bajari, Ava M. Bellizzi, Chris B. Benitez, Daniel R. Berard, Lorenzo Berti, Kelly N. Blease, Angela P. Blum, Andrew M. Boddicker, Leo Bondar, Chris Brown, Chris A. Bui, Juan Calleja-Aguirre, Kevin Cappa, Joshua Chan, Victor W. Chang, Katherine Charov, Xiyi Chen, Rodger M. Constandse, Weston Damron, Mariam Dawood, Nicole DeBuono, John D. Dimalanta, Laure Edoli, Keerthana Elango, Nikka Faustino, Chao Feng, Matthew Ferrari, Keith Frankie, Adam Fries, Anne Galloway, Vlad Gavrila, Gregory J. Gemmen, James Ghadiali, Arash Ghorbani, Logan A. Goddard, Adriana Roginski Guetter, Garren L. Hendricks, Jendrik Hentschel, Daniel J. Honigfort, Yun-Ting Hsieh, Yu-Hsien Hwang Fu, Scott K. Im, Chaoyi Jin, Shradha Kabu, Daniel E. Kincade, Shawn Levy, Yu Li, Vincent K. Liang, William H. Light, Jonathan B. Lipsher, Tsung-li Liu, Grace Long, Rui Ma, John M. Mailloux, Kyle A. Mandla, Anyssa R. Martinez, Max Mass, Daniel T. McKean, Michael Meron, Edmund A. Miller, Celyne S. Moh, Rachel K. Moore, Juan Moreno, Jordan M. Neysmith, Cassandra S. Niman, Jesus M. Nunez, Micah T. Ojeda, Sara Espinosa Ortiz, Jenna Owens, Geoffrey Piland, Daniel J. Proctor, Josua B. Purba, Michael Ray, Daisong Rong, Virginia M. Saade, Sanchari Saha, Gustav Santo Tomas, Nicholas Scheidler, Luqmanal H. Sirajudeen, Samantha Snow, Gudrun Stengel, Ryan Stinson, Michael J. Stone, Keoni J. Sundseth, Eileen Thai, Connor J. Thompson, Marco Tjioe, Christy L. Trejo, Greg Trieger, Diane Ni Truong, Ben Tse, Benjamin Voiles, Henry Vuong, Jennifer C. Wong, Chiung-Ting Wu, Hua Yu, Yingxian Yu, Ming Yu, Xi Zhang, Da Zhao, Genhua Zheng, Molly He, Michael Previte

Publikováno v: Nature Biotechnology.

We present avidity sequencing, a sequencing chemistry that separately optimizes the processes of stepping along a DNA template and that of identifying each nucleotide within the template. Nucleotide identification uses multivalent nucleotide ligands

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::134ecc28f29d15d85c9ac30057097e39
https://doi.org/10.1038/s41587-023-01750-7

A conserved role for human Nup98 in altering chromatin structure and promoting epigenetic transcriptional memory.

Autor: William H Light, Jonathan Freaney, Varun Sood, Abbey Thompson, Agustina D'Urso, Curt M Horvath, Jason H Brickner

Publikováno v: PLoS Biology, Vol 11, Iss 3, p e1001524 (2013)

The interaction of nuclear pore proteins (Nups) with active genes can promote their transcription. In yeast, some inducible genes interact with the nuclear pore complex both when active and for several generations after being repressed, a phenomenon

Externí odkaz: https://doaj.org/article/601700e520d3430998c17d5c6c48a45e

Interaction of a DNA Zip Code with the Nuclear Pore Complex Promotes H2A.Z Incorporation and INO1 Transcriptional Memory

Autor: Donna G. Brickner, Veronica R. Brand, Jason H. Brickner, William H. Light

Publikováno v: Molecular Cell. 40:112-125

DNA “zip codes” in the promoters of yeast genes confer interaction with the NPC and localization at the nuclear periphery upon activation. Some of these genes exhibit transcriptional memory: after being repressed, they remain at the nuclear perip

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::ed377b8c09f90c9b394d7e4d8356341e
https://doi.org/10.1016/j.molcel.2010.09.007

Approaches to Studying Subnuclear Organization and Gene–Nuclear Pore Interactions

Autor: Donna G. Brickner, Defne E Egecioglu, Agustina D’Urso, William H. Light, Jason H. Brickner

Many genes in budding yeast Saccharomyces cerevisiae associate with the nuclear pore complex (NPC), which impacts their location within the nucleus and their transcriptional regulation. To understand how eukaryotic genomes are spatially organized, we

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::a414b57c912fe148cf2517bc2c427c2d
https://doi.org/10.1016/b978-0-12-417160-2.00021-7

Transcription factor binding to a DNA zip code controls interchromosomal clustering at the nuclear periphery

Autor: Feixia Chu, Lauren Meldi, Taylor Hickman, Donna G. Brickner, William H. Light, Sara Ahmed, Matthew A. Young, Jason H. Brickner, Abbey Thompson, Emmanuelle Fabre

Publikováno v: Developmental cell. 22(6)

SummaryActive genes in yeast can be targeted to the nuclear periphery through interaction of cis-acting “DNA zip codes” with the nuclear pore complex. We find that genes with identical zip codes cluster together. This clustering was specific; pai

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6db4eb8e83ca3813018b3c2fdcf123fe
https://pubmed.ncbi.nlm.nih.gov/22698275