Zobrazeno 1 - 10
of 45
pro vyhledávání: '"Ashley Byrne"'
Autor:
Dania Nanes Sarfati, Yuan Xue, Eun Sun Song, Ashley Byrne, Daniel Le, Spyros Darmanis, Stephen R. Quake, Adrien Burlacot, James Sikes, Bo Wang
Publikováno v:
Nature Communications, Vol 15, Iss 1, Pp 1-16 (2024)
Abstract Animal regeneration involves coordinated responses across cell types throughout the animal body. In endosymbiotic animals, whether and how symbionts react to host injury and how cellular responses are integrated across species remain unexplo
Externí odkaz:
https://doaj.org/article/eeedcb14f71847fe97ca0be6ade8565e
Autor:
Roger Volden, Kayla D. Schimke, Ashley Byrne, Danilo Dubocanin, Matthew Adams, Christopher Vollmers
Publikováno v:
Genome Biology, Vol 24, Iss 1, Pp 1-15 (2023)
Abstract In this manuscript, we introduce and benchmark Mandalorion v4.1 for the identification and quantification of full-length transcriptome sequencing reads. It further improves upon the already strong performance of Mandalorion v3.6 used in the
Externí odkaz:
https://doaj.org/article/af5a747bd7ab42a6b5053d0450a7c2ff
Autor:
Jason A. Hackney, Haridha Shivram, Jason Vander Heiden, Chris Overall, Luz Orozco, Xia Gao, Eugene Kim, Nathan West, Aditi Qamra, Diana Chang, Arindam Chakrabarti, David F. Choy, Alexis J. Combes, Tristan Courau, Gabriela K. Fragiadakis, Arjun Arkal Rao, Arja Ray, Jessica Tsui, Kenneth Hu, Nicholas F. Kuhn, Matthew F. Krummel, David J. Erle, Kirsten Kangelaris, Aartik Sarma, Zoe Lyon, Carolyn S. Calfee, Prescott G. Woodruff, Rajani Ghale, Eran Mick, Ashley Byrne, Beth Shoshana Zha, Charles Langelier, Carolyn M. Hendrickson, Monique G.P. van der Wijst, George C. Hartoularos, Tianna Grant, Raymund Bueno, David S. Lee, John R. Greenland, Yang Sun, Richard Perez, Anton Ogorodnikov, Alyssa Ward, Chun Jimmie Ye, Thiru Ramalingam, Jacqueline M. McBride, Fang Cai, Anastasia Teterina, Min Bao, Larry Tsai, Ivan O. Rosas, Aviv Regev, Sharookh B. Kapadia, Rebecca N. Bauer, Carrie M. Rosenberger, Yumiko Abe-Jones, Michael Adkisson, K. Mark Ansel, Saurabh Asthana, Alexander Beagle, Sharvari Bhide, Cathy Cai, Saharai Caldera, Maria Calvo, Sidney A. Carrillo, Suzanna Chak, Stephanie Christenson, Zachary Collins, Spyros Darmanis, Angela Detweiler, Catherine DeVoe, Walter Eckalbar, Jeremy Giberson, Ana Gonzalez, Gracie Gordon, Paula Hayakawa Serpa, Alejandra Jauregui, Chayse Jones, Serena Ke, Divya Kushnoor, Tasha Lea, Deanna Lee, Aleksandra Leligdowicz, Yale Liu, Salman Mahboob, Lenka Maliskova, Michael Matthay, Elizabeth McCarthy, Priscila Muñoz-Sandoval, Norma Neff, Viet Nguyen, Nishita Nigam, Randy Parada, Maira Phelps, Logan Pierce, Priya Prasad, Sadeed Rashid, Gabriella Reeder, Nicklaus Rodriguez, Bushra Samad, Andrew Schroeder, Cole Shaw, Alan Shen, Austin Sigman, Pratik Sinha, Matthew Spitzer, Sara Sunshine, Kevin Tang, Luz Torres Altamirano, Alexandra Tsitsiklis, Erden Tumurbaatar, Vaibhav Upadhyay, Alexander Whatley, Andrew Willmore, Michael Wilson, Juliane Winkler, Kristine Wong, Kimberly Yee, Michelle Yu, Mingyue Zhou, Wandi S. Zhu
Publikováno v:
iScience, Vol 26, Iss 10, Pp 107813- (2023)
Summary: Altered myeloid inflammation and lymphopenia are hallmarks of severe infections. We identified the upregulated EN-RAGE gene program in airway and blood myeloid cells from patients with acute lung injury from SARS-CoV-2 or other causes across
Externí odkaz:
https://doaj.org/article/9fcf76e7c2d9439cbd17b0a0b7fa8d89
Autor:
Aartik Sarma, Stephanie A. Christenson, Ashley Byrne, Eran Mick, Angela Oliveira Pisco, Catherine DeVoe, Thomas Deiss, Rajani Ghale, Beth Shoshana Zha, Alexandra Tsitsiklis, Alejandra Jauregui, Farzad Moazed, Angela M. Detweiler, Natasha Spottiswoode, Pratik Sinha, Norma Neff, Michelle Tan, Paula Hayakawa Serpa, Andrew Willmore, K. Mark Ansel, Jennifer G. Wilson, Aleksandra Leligdowicz, Emily R. Siegel, Marina Sirota, Joseph L. DeRisi, Michael A. Matthay, COMET Consortium, Carolyn M. Hendrickson, Kirsten N. Kangelaris, Matthew F. Krummel, Prescott G. Woodruff, David J. Erle, Carolyn S. Calfee, Charles R. Langelier
Publikováno v:
Nature Communications, Vol 12, Iss 1, Pp 1-10 (2021)
Here, the authors perform transcriptional profiling on tracheal aspirates of adults requiring mechanical ventilation for SARS-CoV2-induced acute respiratory distress syndrome (ARDS) and identify a dysregulated host response predicted to predicted to
Externí odkaz:
https://doaj.org/article/5e15572a162f473290932a34e9eb1ffa
Autor:
Nedda F. Saremi, Megan A. Supple, Ashley Byrne, James A. Cahill, Luiz Lehmann Coutinho, Love Dalén, Henrique V. Figueiró, Warren E. Johnson, Heather J. Milne, Stephen J. O’Brien, Brendan O’Connell, David P. Onorato, Seth P. D. Riley, Jeff A. Sikich, Daniel R. Stahler, Priscilla Marqui Schmidt Villela, Christopher Vollmers, Robert K. Wayne, Eduardo Eizirik, Russell B. Corbett-Detig, Richard E. Green, Christopher C. Wilmers, Beth Shapiro
Publikováno v:
Nature Communications, Vol 10, Iss 1, Pp 1-10 (2019)
Pumas are experiencing increased isolation as human persecution and habitat loss fragment the populations of this once widespread species. Here, the authors estimate the genomic consequences of this isolation by analyzing the genomes of ten pumas fro
Externí odkaz:
https://doaj.org/article/a3a54548bc5e4898a6632c025ce8f846
Autor:
Shelbi L Russell, Evan Pepper-Tunick, Jesper Svedberg, Ashley Byrne, Jennie Ruelas Castillo, Christopher Vollmers, Roxanne A Beinart, Russell Corbett-Detig
Publikováno v:
PLoS Genetics, Vol 16, Iss 8, p e1008935 (2020)
Bacterial symbionts bring a wealth of functions to the associations they participate in, but by doing so, they endanger the genes and genomes underlying these abilities. When bacterial symbionts become obligately associated with their hosts, their ge
Externí odkaz:
https://doaj.org/article/defc6993f08442e580942384556049d3
Autor:
Kacee Ann DiTacchio, Diana Kalinowska, Anand Rajamani Saran, Ashley Byrne, Christopher Vollmers, Luciano DiTacchio
Publikováno v:
Cell Reports, Vol 31, Iss 8, Pp - (2020)
Summary: The liver is a key regulator of systemic energy homeostasis whose proper function is dependent on the circadian clock. Here, we show that livers deficient in the oscillator component JARID1a exhibit a dysregulation of genes involved in energ
Externí odkaz:
https://doaj.org/article/239ad061b3b74c7eb716e921eb784b99
Autor:
Ashley Byrne, Anna E. Beaudin, Hugh E. Olsen, Miten Jain, Charles Cole, Theron Palmer, Rebecca M. DuBois, E. Camilla Forsberg, Mark Akeson, Christopher Vollmers
Publikováno v:
Nature Communications, Vol 8, Iss 1, Pp 1-11 (2017)
Short-read RNA-seq is limited in its ability to resolve complex transcript isoforms since it cannot sequence full-length cDNA. Here the authors use Oxford Nanopore MinION and their Mandalorion analysis pipeline to measure complex isoforms in B1a cell
Externí odkaz:
https://doaj.org/article/47e55c463ee54d15b838dd82d9d1d77f
Autor:
Ashley Byrne, Megan A. Supple, Roger Volden, Kristin L. Laidre, Beth Shapiro, Christopher Vollmers
Publikováno v:
Frontiers in Genetics, Vol 10 (2019)
Transcriptome studies evaluating whole blood and tissues are often confounded by overrepresentation of highly abundant transcripts. These abundant transcripts are problematic, as they compete with and prevent the detection of rare RNA transcripts, ob
Externí odkaz:
https://doaj.org/article/082ce3c259754d7fb9a7c1648c5a4cc5
Autor:
Nedda F. Saremi, Megan A. Supple, Ashley Byrne, James A. Cahill, Luiz Lehmann Coutinho, Love Dalén, Henrique V. Figueiró, Warren E. Johnson, Heather J. Milne, Stephen J. O’Brien, Brendan O’Connell, David P. Onorato, Seth P. D. Riley, Jeff A. Sikich, Daniel R. Stahler, Priscilla Marqui Schmidt Villela, Christopher Vollmers, Robert K. Wayne, Eduardo Eizirik, Russell B. Corbett-Detig, Richard E. Green, Christopher C. Wilmers, Beth Shapiro
Publikováno v:
Nature Communications, Vol 10, Iss 1, Pp 1-1 (2019)
An amendment to this paper has been published and can be accessed via a link at the top of the paper.
Externí odkaz:
https://doaj.org/article/bac8f09561b840a1acc6d54f4b5bb380