Zobrazeno 1 - 10
of 14
pro vyhledávání: '"Ilia Minkin"'
Autor:
Ales Varabyou, Markus J. Sommer, Beril Erdogdu, Ida Shinder, Ilia Minkin, Kuan-Hao Chao, Sukhwan Park, Jakob Heinz, Christopher Pockrandt, Alaina Shumate, Natalia Rincon, Daniela Puiu, Martin Steinegger, Steven L. Salzberg, Mihaela Pertea
Publikováno v:
Genome Biology, Vol 24, Iss 1, Pp 1-16 (2023)
Abstract CHESS 3 represents an improved human gene catalog based on nearly 10,000 RNA-seq experiments across 54 body sites. It significantly improves current genome annotation by integrating the latest reference data and algorithms, machine learning
Externí odkaz:
https://doaj.org/article/20e94c3931d244779a6859df07d6e08f
Autor:
Markus J Sommer, Sooyoung Cha, Ales Varabyou, Natalia Rincon, Sukhwan Park, Ilia Minkin, Mihaela Pertea, Martin Steinegger, Steven L Salzberg
Publikováno v:
eLife, Vol 11 (2022)
Recently developed methods to predict three-dimensional protein structure with high accuracy have opened new avenues for genome and proteome research. We explore a new hypothesis in genome annotation, namely whether computationally predicted structur
Externí odkaz:
https://doaj.org/article/c835503456a64f098e302b3d3173af99
Autor:
Ilia Minkin, Paul Medvedev
Publikováno v:
Nature Communications, Vol 11, Iss 1, Pp 1-11 (2020)
Multiple whole-genome alignment is a challenging problem in bioinformatics, especially when computational resources are limited. Here the authors present SibeliaZ, an algorithm and software based on analysis of de Bruijn graphs, which provides improv
Externí odkaz:
https://doaj.org/article/0f88c82844904b66bfae58b980448170
Autor:
Bastien Llamas, Giuseppe Narzisi, Valerie Schneider, Peter A. Audano, Evan Biederstedt, Lon Blauvelt, Peter Bradbury, Xian Chang, Chen-Shan Chin, Arkarachai Fungtammasan, Wayne E. Clarke, Alan Cleary, Jana Ebler, Jordan Eizenga, Jonas A. Sibbesen, Charles J. Markello, Erik Garrison, Shilpa Garg, Glenn Hickey, Gerard R. Lazo, Michael F. Lin, Medhat Mahmoud, Tobias Marschall, Ilia Minkin, Jean Monlong, Rajeeva L. Musunuri, Sagayamary Sagayaradj, Adam M. Novak, Mikko Rautiainen, Allison Regier, Fritz J. Sedlazeck, Jouni Siren, Yassine Souilmi, Justin Wagner, Travis Wrightsman, Toshiyuki T. Yokoyama, Qiandong Zeng, Justin M. Zook, Benedict Paten, Ben Busby
Publikováno v:
F1000Research, Vol 8 (2021)
In March 2019, 45 scientists and software engineers from around the world converged at the University of California, Santa Cruz for the first pangenomics codeathon. The purpose of the meeting was to propose technical specifications and standards for
Externí odkaz:
https://doaj.org/article/b7e3e00f11464dcdb366d9ddb5fb3d3a
Autor:
Ilia Minkin, Paul Medvedev
Publikováno v:
iScience, Vol 23, Iss 6, Pp 101224- (2020)
Summary: Pairwise whole-genome homology mapping is the problem of finding all pairs of homologous intervals between a pair of genomes. As the number of available whole genomes has been rising dramatically in the last few years, there has been a need
Externí odkaz:
https://doaj.org/article/7e6be528f1184fbca3510e99a6812159
Autor:
Ales Varabyou, Markus J. Sommer, Beril Erdogdu, Ida Shinder, Ilia Minkin, Kuan-Hao Chao, Sukhwan Park, Jakob Heinz, Christopher Pockrandt, Alaina Shumate, Natalia Rincon, Daniela Puiu, Martin Steinegger, Steven L. Salzberg, Mihaela Pertea
The original CHESS database of human genes was assembled from nearly 10,000 RNA sequencing experiments in 53 human body sites produced by the Genotype-Tissue Expression (GTEx) project, and then augmented with genes from other databases to yield a com
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::26cb2390259bcb782b79850651274db3
https://doi.org/10.1101/2022.12.21.521274
https://doi.org/10.1101/2022.12.21.521274
Autor:
Markus J Sommer, Sooyoung Cha, Ales Varabyou, Natalia Rincon, Sukhwan Park, Ilia Minkin, Mihaela Pertea, Martin Steinegger, Steven L Salzberg
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::4df0175a777683d30b6dee47c8cad30c
https://doi.org/10.7554/elife.82556.sa2
https://doi.org/10.7554/elife.82556.sa2
Autor:
Markus J. Sommer, Sooyoung Cha, Ales Varabyou, Natalia Rincon, Sukhwan Park, Ilia Minkin, Mihaela Pertea, Martin Steinegger, Steven L. Salzberg
We explore a new hypothesis in genome annotation, namely whether computationally predicted protein structures can help to identify which of multiple possible gene isoforms represents a functional protein product. Guided by structure predictions, we e
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::a601ccad6f91f2013a4b623ec813d737
https://doi.org/10.1101/2022.06.08.495354
https://doi.org/10.1101/2022.06.08.495354
Autor:
Sommer, Markus J., Sooyoung Cha, Ales Varabyou, Rincon, Natalia, Sukhwan Park, Ilia Minkin, Pertea, Mihaela, Steinegger, Martin, Salzberg, Steven L.
Publikováno v:
eLife; 12/15/2022, p1-21, 21p
Autor:
Wayne E. Clarke, Ilia Minkin, Yassine Souilmi, Shilpa Garg, Jouni Sirén, Arkarachai Fungtammasan, Medhat Mahmoud, Giuseppe Narzisi, Peter J. Bradbury, Ben Busby, Justin Wagner, Mikko Rautiainen, Gerard R. Lazo, Rajeeva Musunuri, Fritz J. Sedlazeck, Jean Monlong, Valerie A. Schneider, Erik Garrison, Xian Chang, Justin M. Zook, Bastien Llamas, Jonas Andreas Sibbesen, Allison A. Regier, Glenn Hickey, Evan Biederstedt, Toshiyuki T. Yokoyama, Sagayamary Sagayaradj, Lon Blauvelt, Qiandong Zeng, Peter A. Audano, Charles Markello, Alan Cleary, Benedict Paten, Adam M. Novak, Chen-Shan Chin, Michael F. Lin, Tobias Marschall, Jordan M. Eizenga, Travis Wrightsman, Jana Ebler
Publikováno v:
F1000Research
In March 2019, 45 scientists and software engineers from around the world converged at the University of California, Santa Cruz for the first pangenomics codeathon. The purpose of the meeting was to propose technical specifications and standards for
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::e45be3287e012532c6471f8bdeb1e31a
https://pubmed.ncbi.nlm.nih.gov/34386196
https://pubmed.ncbi.nlm.nih.gov/34386196