Zobrazeno 1 - 10 of 23 pro vyhledávání: '"Tomáš Raček"'
1
Akademický článek
Several distinct polycomb complexes regulate and co-localize on the INK4a tumor suppressor locus.
Autor: Goedele N Maertens, Selma El Messaoudi-Aubert, Tomas Racek, Julie K Stock, James Nicholls, Marc Rodriguez-Niedenführ, Jesus Gil, Gordon Peters
Publikováno v: PLoS ONE, Vol 4, Iss 7, p e6380 (2009)
Misexpression of Polycomb repressive complex 1 (PRC1) components in human cells profoundly influences the onset of cellular senescence by modulating transcription of the INK4a tumor suppressor gene. Using tandem affinity purification, we find that CB
Externí odkaz: https://doaj.org/article/c8fee45a47a84dd9ac42b4409c63fa8a
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2
Akademický článek
Optimized SQE atomic charges for peptides accessible via a web application
Autor: Ondřej Schindler, Tomáš Raček, Aleksandra Maršavelski, Jaroslav Koča, Karel Berka, Radka Svobodová
Publikováno v: Journal of Cheminformatics, Vol 13, Iss 1, Pp 1-11 (2021)
Abstract Background Partial atomic charges find many applications in computational chemistry, chemoinformatics, bioinformatics, and nanoscience. Currently, frequently used methods for charge calculation are the Electronegativity Equalization Method (
Externí odkaz: https://doaj.org/article/169dbc18d0964272ae4286310036a6f8
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4
Akademický článek
Correction to: Optimized SQE atomic charges for peptides accessible via a web application
Autor: Ondřej Schindler, Tomáš Raček, Aleksandra Maršavelski, Jaroslav Koča, Karel Berka, Radka Svobodová
Publikováno v: Journal of Cheminformatics, Vol 13, Iss 1, Pp 1-2 (2021)
A Correction to this paper has been published: https://doi.org/10.1186/s13321-021-00528-w
Externí odkaz: https://doaj.org/article/7465af7c6a0948caaa0573057da63727
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5
αCharges: partial atomic charges for AlphaFold structures in high quality
Autor: Ondřej Schindler, Karel Berka, Alessio Cantara, Aleš Křenek, Dominik Tichý, Tomáš Raček, Radka Svobodová
Publikováno v: Nucleic Acids Research.
The AlphaFold2 prediction algorithm opened up the possibility of exploring proteins’ structural space at an unprecedented scale. Currently, >200 million protein structures predicted by this approach are deposited in AlphaFoldDB, covering entire pro
Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::838b214d0f39f5510ea3079e1cd076aa
https://doi.org/10.1093/nar/gkad349
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6
An evaluation of EDAM coverage in the Tools Ecosystem and prototype integration of Galaxy and WorkflowHub systems
Autor: Lucie Lamothe, Jennifer Rugaard Bregndahl Jensen, Hans Ienasescu, Ove Johan Ragnar Gustafsson, Alban Gaignard, Dmitry Repchevsky, Radka Svobodová, Tomáš Raček, Matej Antol, Magnus Palmblad, Matúš Kalaš, Hervé MENAGER
Here we report the results of a project started at the BioHackathon Europe 2022. Its goals were to cross-compare and analyze the metadata centralized in the Tools Ecosystem, and linked to the EDAM ontology, as well as to explore methods for connectin
Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::33ec78fbd50fed430a6e8e52b36641ff
https://doi.org/10.37044/osf.io/79kje
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7
Atomic Charge Calculator II: web-based tool for the calculation of partial atomic charges
Autor: Vladimír Horský, Karel Berka, Radka Svobodová, Ondřej Schindler, Jaroslav Koča, Tomáš Raček, Dominik Toušek
Publikováno v: Nucleic Acids Research
Partial atomic charges serve as a simple model for the electrostatic distribution of a molecule that drives its interactions with its surroundings. Since partial atomic charges are frequently used in computational chemistry, chemoinformatics and bioi
Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6469a7107d68dfc71ed15278d8496a2f
http://europepmc.org/articles/PMC7319571
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8
Similarity Search for an Extreme Application: Experience and Implementation
Autor: Pavel Zezula, Vladimir Mic, Aleš Křenek, Tomáš Raček
Publikováno v: Similarity Search and Applications ISBN: 9783030896560
SISAP
Contemporary challenges for efficient similarity search include complex similarity functions, the curse of dimensionality, and large sizes of descriptive features of data objects. This article reports our experience with a database of protein chains
Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::bf633f571109e9f1d0937c6d510a3907
https://doi.org/10.1007/978-3-030-89657-7_20
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9
Akademický článek
Transcriptional profiling upon T cell stimulation reveals down-regulation of inflammatory pathways in T and B cells in SLE versus Sjögren’s syndrome
Autor: Gino Kwon, Annika Wiedemann, Lisa M. Steinheuer, Ana-Luisa Stefanski, Franziska Szelinski, Tomas Racek, Andreas Philipp Frei, Klas Hatje, Tony Kam-Thong, David Schubert, Thomas Schindler, Thomas Dörner, Kevin Thurley
Publikováno v: npj Systems Biology and Applications, Vol 9, Iss 1, Pp 1-12 (2023)
Abstract Systemic lupus erythematosus (SLE) and primary Sjögren’s syndrome (pSS) share clinical as well as pathogenic similarities. Although previous studies suggest various abnormalities in different immune cell compartments, dedicated cell-type
Externí odkaz: https://doaj.org/article/d842d9b1ede44c8c9b4c539caeb38071
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10
The bio.tools registry of software tools and data resources for the life sciences
Autor: Piotr Jaroslaw Chmura, Salvador Capella, Rob Hooft, Søren Brunak, Tomáš Raček, Inge Jonassen, Rodrigo Lopez, Jacques van Helden, Bengt Persson, Hedi Peterson, Brane Leskošek, Alfonso Valencia, Heinz Stockinger, Hervé Ménager, Emil Karol Rydza, Matúš Kalaš, Josep Lluís Gelpí, Tommi Nyrönen, Hans Ienasescu, Christophe Blanchet, Rafael C. Jimenez, Björn Grüning, Jon Ison, Babis Savakis, Radka Svobodová Vařeková, Arlindo L. Oliveira, Peter Løngreen, Niall Beard, Gert Vriend, Veit Schwämmle, Jiří Vondrášek, Séverine Duvaud, Federico Zambelli, Ahto Salumets, Kristoffer Rapacki, Olivier Collin
Publikováno v: Genome Biology
Ison, J, Ienasescu, H, Chmura, P, Rydza, E, Ménager, H, Kalaš, M, Schwämmle, V, Grüning, B, Beard, N, Lopez, R, Duvaud, S, Stockinger, H, Persson, B, Vařeková, R S, Raček, T, Vondrášek, J, Peterson, H, Salumets, A, Jonassen, I, Hooft, R, Nyrönen, T, Valencia, A, Capella, S, Gelpí, J, Zambelli, F, Savakis, B, Leskošek, B, Rapacki, K, Blanchet, C, Jimenez, R, Oliveira, A, Vriend, G, Collin, O, van Helden, J, Løngreen, P & Brunak, S 2019, ' The bio.tools registry of software tools and data resources for the life sciences ', Genome Biology, vol. 20, no. 1, 164 . https://doi.org/10.1186/s13059-019-1772-6
Dipòsit Digital de la UB
Universidad de Barcelona
Genome Biology, BioMed Central, 2019, 20 (164), pp.1-4. ⟨10.1186/s13059-019-1772-6⟩
Genome Biology, 2019, 20 (164), pp.1-4. ⟨10.1186/s13059-019-1772-6⟩
Genome Biology, Vol 20, Iss 1, Pp 1-4 (2019)
Genome Biology, 20, 164
Genome Biology, 20, 1, pp. 164
Ison, J, Ienasescu, H, Chmura, P J, Rydza, E K, Menager, H, Kalaš, M, Schwammle, V, Gruning, B, Beard, N, Lopez, R, Duvaud, S, Stockinger, H, Persson, B, Vařekova, R S, Raček, T, Vondrašek, J, Peterson, H, Salumets, A, Jonassen, I, Hooft, R, Nyronen, T, Valencia, A, Capella, S, Gelpi, J, Zambelli, F, Savakis, B, Leskošek, B, Rapacki, K, Blanchet, C, Jimenez, R, Oliveira, A, Vriend, G, Collin, O, Van Helden, J, Løngreen, P & Brunak, S 2019, ' The bio.tools registry of software tools and data resources for the life sciences ', Genome Biology, vol. 20, no. 1, 164 . https://doi.org/10.1186/s13059-019-1772-6
Ison, J, Ienasescu, H, Chmura, P, Rydza, E, Menager, H, Kalaš, M, Schwammle, V, Gruning, B, Beard, N, Lopez, R, Duvaud, S, Stockinger, H, Persson, B, Vařekova, R S, Raček, T, Vondrašek, J, Peterson, H, Salumets, A, Jonassen, I, Hooft, R, Nyronen, T, Valencia, A, Capella, S, Gelpi, J, Zambelli, F, Savakis, B, Leskošek, B, Rapacki, K, Blanchet, C, Jimenez, R, Oliveira, A, Vriend, G, Collin, O, Van Helden, J, Løngreen, P & Brunak, S 2019, ' The bio.tools registry of software tools and data resources for the life sciences ', Genome Biology, vol. 20, no. 1, 164 . https://doi.org/10.1186/s13059-019-1772-6
Sygma
INRIA a CCSD electronic archive server
NARCIS
Digitala Vetenskapliga Arkivet-Academic Archive On-line
Online Research Database In Technology
DOAJ-Articles
HAL-Pasteur
Hyper Article en Ligne
Copenhagen University Research Information System
Datacite
UnpayWall
ORCID
Microsoft Academic Graph
HAL-UPEC / UPEM
University of Southern Denmark Research Output
Hal-Diderot
HAL-CEA
Bergen Open Research Archive-UiB
HAL Descartes
HAL-Inserm
HAL-Rennes 1
Publikationer från Uppsala Universitet
HAL AMU
Diposit Digital de la Universitat de Barcelona
Archivio Istituzionale della Ricerca dell'Università degli Studi di Milano
PubMed Central
Mémoires en Sciences de l'Information et de la Communication
Norwegian Open Research Archives
Genome Biology, 20
Bioinformaticians and biologists rely increasingly upon workflows for the flexible utilization of the many life science tools that are needed to optimally convert data into knowledge. We outline a pan-European enterprise to provide a catalogue (https
Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::effa6f5a0459fe8eb2a1ef8d4925cc00
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