Zobrazeno 1 - 10
of 26
pro vyhledávání: '"Milot Mirdita"'
Autor:
Fabian Ruperti, Nikolaos Papadopoulos, Jacob M. Musser, Milot Mirdita, Martin Steinegger, Detlev Arendt
Publikováno v:
Genome Biology, Vol 24, Iss 1, Pp 1-21 (2023)
Abstract Background Protein annotation is a major goal in molecular biology, yet experimentally determined knowledge is typically limited to a few model organisms. In non-model species, the sequence-based prediction of gene orthology can be used to i
Externí odkaz:
https://doaj.org/article/13136b8e8a7842468195aa44612402f6
Autor:
Fabian Ruperti, Nikolaos Papadopoulos, Jacob M. Musser, Milot Mirdita, Martin Steinegger, Detlev Arendt
Publikováno v:
Genome Biology, Vol 25, Iss 1, Pp 1-1 (2024)
Externí odkaz:
https://doaj.org/article/3b9b2af024154599b06591c2a8b9501a
Publikováno v:
Microbiome, Vol 8, Iss 1, Pp 1-15 (2020)
Abstract Background Metagenomics is revolutionizing the study of microorganisms and their involvement in biological, biomedical, and geochemical processes, allowing us to investigate by direct sequencing a tremendous diversity of organisms without th
Externí odkaz:
https://doaj.org/article/36812ff526fc4f96b38c76bd60b22ef7
Autor:
Martin Steinegger, Markus Meier, Milot Mirdita, Harald Vöhringer, Stephan J. Haunsberger, Johannes Söding
Publikováno v:
BMC Bioinformatics, Vol 20, Iss 1, Pp 1-15 (2019)
Abstract Background HH-suite is a widely used open source software suite for sensitive sequence similarity searches and protein fold recognition. It is based on pairwise alignment of profile Hidden Markov models (HMMs), which represent multiple seque
Externí odkaz:
https://doaj.org/article/59e6cde7518149c596f2e8cd8b7e6c97
Autor:
Chen Keasar, Liam J. McGuffin, Björn Wallner, Gaurav Chopra, Badri Adhikari, Debswapna Bhattacharya, Lauren Blake, Leandro Oliveira Bortot, Renzhi Cao, B. K. Dhanasekaran, Itzhel Dimas, Rodrigo Antonio Faccioli, Eshel Faraggi, Robert Ganzynkowicz, Sambit Ghosh, Soma Ghosh, Artur Giełdoń, Lukasz Golon, Yi He, Lim Heo, Jie Hou, Main Khan, Firas Khatib, George A. Khoury, Chris Kieslich, David E. Kim, Pawel Krupa, Gyu Rie Lee, Hongbo Li, Jilong Li, Agnieszka Lipska, Adam Liwo, Ali Hassan A. Maghrabi, Milot Mirdita, Shokoufeh Mirzaei, Magdalena A. Mozolewska, Melis Onel, Sergey Ovchinnikov, Anand Shah, Utkarsh Shah, Tomer Sidi, Adam K. Sieradzan, Magdalena Ślusarz, Rafal Ślusarz, James Smadbeck, Phanourios Tamamis, Nicholas Trieber, Tomasz Wirecki, Yanping Yin, Yang Zhang, Jaume Bacardit, Maciej Baranowski, Nicholas Chapman, Seth Cooper, Alexandre Defelicibus, Jeff Flatten, Brian Koepnick, Zoran Popović, Bartlomiej Zaborowski, David Baker, Jianlin Cheng, Cezary Czaplewski, Alexandre Cláudio Botazzo Delbem, Christodoulos Floudas, Andrzej Kloczkowski, Stanislaw Ołdziej, Michael Levitt, Harold Scheraga, Chaok Seok, Johannes Söding, Saraswathi Vishveshwara, Dong Xu, Foldit Players consortium, Silvia N. Crivelli
Publikováno v:
Scientific Reports, Vol 8, Iss 1, Pp 1-18 (2018)
Abstract Every two years groups worldwide participate in the Critical Assessment of Protein Structure Prediction (CASP) experiment to blindly test the strengths and weaknesses of their computational methods. CASP has significantly advanced the field
Externí odkaz:
https://doaj.org/article/b0b847aec1154062a3c86bac14d94e55
Autor:
Michel van Kempen, Stephanie S. Kim, Charlotte Tumescheit, Milot Mirdita, Jeongjae Lee, Cameron L.M. Gilchrist, Johannes Söding, Martin Steinegger
Publikováno v:
Nature Biotechnology
As structure prediction methods are generating millions of publicly available protein structures, searching these databases is becoming a bottleneck. Foldseek aligns the structure of a query protein against a database by describing tertiary amino aci
Autor:
Martin Steinegger, Pedro Beltrao, Sameer Velankar, Mihaly Varadi, Tanita Wein, Cameron Gilchrist, Milot Mirdita, Jürgen Jänes, Jingi Yeo, Inigo Barrio-Hernandez
Proteins are key to all cellular processes and their structure is important in understanding their function and evolution. Sequence-based predictions of protein structures have increased in accuracy with over 214 million predicted structures availabl
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::8bbbef129f33b5bbb5d2724c7419bb6d
https://doi.org/10.21203/rs.3.rs-2727632/v1
https://doi.org/10.21203/rs.3.rs-2727632/v1
Autor:
Milot Mirdita, Konstantin Schütze, Yoshitaka Moriwaki, Lim Heo, Sergey Ovchinnikov, Martin Steinegger
Publikováno v:
Nature Methods
ColabFold offers accelerated protein structure and complex predictions by combining the fast homology search of MMseqs2 with AlphaFold2 or RoseTTAFold. ColabFold’s 40 - 60× faster search and optimized model use allows predicting close to a thousan
Publikováno v:
Bioinformatics. 39
Summary Highly accurate protein structure predictors have generated hundreds of millions of protein structures; these pose a challenge in terms of storage and processing. Here, we present Foldcomp, a novel lossy structure compression algorithm, and i
Autor:
Fabian Ruperti, Nikolaos Papadopoulos, Jacob Musser, Milot Mirdita, Martin Steinegger, Detlev Arendt
Publikováno v:
Biorxiv
bioRxiv
bioRxiv
BackgroundAnnotating protein function is a major goal in molecular biology, yet experimentally determined knowledge is often limited to a few model organisms. In non-model species, the sequence-based prediction of gene orthology can be used to infer
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::aa577e76ba91f5585fbf23c1c2647643
https://doi.org/10.1101/2022.07.05.498892
https://doi.org/10.1101/2022.07.05.498892