eArticles

1 . Academic Journal

Perspectives on automated composition of workflows in the life sciences [version 1; peer review: 2 approved]

저자: by Anna-Lena Lamprecht; Magnus Palmblad; Jon Ison; Veit Schwämmle; Mohammad Sadnan Al Manir, et al.
소스: F1000Research, Vol 10 (2021)

7 . Academic Journal

The bio.tools registry of software tools and data resources for the life sciences

저자: by Jon Ison; Hans Ienasescu; Piotr Chmura; Emil Rydza; Hervé Ménager, et al.
소스: Genome Biology, Vol 20, Iss 1, Pp 1-4 (2019)

7 .

An evaluation of EDAM coverage in the Tools Ecosystem and prototype integration of Galaxy and WorkflowHub systems

저자: by Lucie Lamothe; Jennifer Rugaard Bregndahl Jensen; Hans Ienasescu; Ove Johan Ragnar Gustafsson; Alban Gaignard, et al.
소스

Open Access (OpenAIRE)

7 .

Perspectives on automated composition of workflows in the life sciences

저자: by Robin A. Richardson; Timothy J. Griffin; Hailiang Mei; Jon Ison; Pratik D. Jagtap, et al.
소스: F1000Research, 10:897. F1000 Research Ltd.
F1000Research, 10, 1. F1000 Research Ltd.
F1000Research
F1000Research, 2021, 10, pp.897. ⟨10.12688/f1000research.54159.1⟩
Lamprecht, A-L, Palmblad, M, Ison, J, Schwämmle, V S, Sadnan Al Manir, M, Altintas, I, Baker, C J O, Amor, A B H, Capella-Gutierrez, S, Charonyktakis, P, Crusoe, M R, Gil, Y, Goble, C, Griffin, T J, Groth, P, Ienasescu, H, Jagtap, P, Kalaš, M, Kasalica, V, Khanteymoori, A, Kuhn, T, Mei, H, Ménager, H, Möller, S, Richardson, R A, Robert, V, Soiland-Reyes, S, Stevens, R K, Szaniszlo, S, Verberne, S & Verhoeven, A 2021, ' Perspectives on automated composition of workflows in the life sciences ', F1000Research, vol. 10, 897 . https://doi.org/10.12688/f1000research.54159.1
F1000Research, 10
Lamprecht, A L, Palmblad, M, Ison, J, Schwämmle, V, Al Manir, M S, Altintas, I, Baker, C J O, Ben Hadj Amor, A, Capella-Gutierrez, S, Charonyktakis, P, Crusoe, M R, Gil, Y, Goble, C, Griffin, T J, Groth, P, Ienasescu, H, Jagtap, P, Kalaš, M, Kasalica, V, Khanteymoori, A, Kuhn, T, Mei, H, Ménager, H, Möller, S, Richardson, R A, Robert, V, Soiland-Reyes, S, Stevens, R, Szaniszlo, S, Verberne, S, Verhoeven, A & Wolstencroft, K 2021, ' Perspectives on automated composition of workflows in the life sciences ', F1000Research, vol. 10, 897, pp. 1-28 . https://doi.org/10.12688/f1000research.54159.1
F1000Research, 10:897, 1-28. F1000 Research Ltd.
F1000Research, 10. F1000 Research Ltd.
Lamprecht, A-L, Palmblad, M, Ison, J, Schwämmle, V, Al Manir, M S, Altintas, I, Baker, C J O, Ben Hadj Amor, A, Capella-Gutierrez, S, Charonyktakis, P, Crusoe, M R, Gil, Y, Goble, C, Griffin, T J, Groth, P, Ienasescu, H, Jagtap, P, Kalaš, M, Kasalica, V, Khanteymoori, A, Kuhn, T, Mei, H, Ménager, H, Möller, S, Richardson, R A, Robert, V, Soiland-Reyes, S, Stevens, R, Szaniszlo, S, Verberne, S, Verhoeven, A & Wolstencroft, K 2021, ' Perspectives on automated composition of workflows in the life sciences ', F1000Research, vol. 10, 897 . https://doi.org/10.12688/f1000research.54159.1

7 .

Proteomics Software in bio.tools: Coverage and Annotations

저자: by Veit Schwämmle; Hans Ienasescu; Jennifer Harrow.
소스: Schwämmle, V, Harrow, J & Ienasescu, H 2021, ' Proteomics Software in bio.tools : Coverage and Annotations ', Journal of proteome research, vol. 20, no. 4, pp. 1821–1825 . https://doi.org/10.1021/acs.jproteome.0c00978

5 .

biotoolsSchema: a formalized schema for bioinformatics software description

저자: by Jacques van Helden; Hervé Ménager; Emil Karol Rydza; Veit Schwämmle; Jon Ison, et al.
소스: GigaScience
GigaScience, 2021, 10 (1), pp.giaa157. ⟨10.1093/gigascience/giaa157⟩
Ison, J, Ienasescu, H, Rydza, E, Chmura, P, Rapacki, K, Gaignard, A, Schwämmle, V, van Helden, J, Kalaš, M & Ménager, H 2021, ' biotoolsSchema : a formalized schema for bioinformatics software description ', GigaScience, vol. 10, no. 1 . https://doi.org/10.1093/gigascience/giaa157
GigaScience, BioMed Central, 2021, 10 (1), ⟨10.1093/gigascience/giaa157⟩
Ison, J, Ienasescu, H, Rydza, E, Chmura, P, Rapacki, K, Gaignard, A, Schwämmle, V, Van Helden, J, Kalaš, M & Ménager, H 2021, ' biotoolsSchema : a formalized schema for bioinformatics software description ', GigaScience, vol. 10, no. 1, giaa157 . https://doi.org/10.1093/gigascience/giaa157
giaa157

7 .

The bio.tools registry of software tools and data resources for the life sciences

저자: by Piotr Jaroslaw Chmura; Salvador Capella; Rob Hooft; Søren Brunak; Tomáš Raček, et al.
소스: 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
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Publikationer från Uppsala Universitet
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Diposit Digital de la Universitat de Barcelona
Archivio Istituzionale della Ricerca dell'Università degli Studi di Milano
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Mémoires en Sciences de l'Information et de la Communication
Norwegian Open Research Archives
Genome Biology, 20

7 .

On-the-fly selection of cell-specific enhancers, genes, miRNAs and proteins across the human body using SlideBase

저자: by Emil Lagoni; Sarah Rennie; Yoshihide Hayashizaki; Timo Lassmann; Robin Andersson, et al.
소스: Database: The Journal of Biological Databases and Curation
Ienasescu, H-I, Li, K, Andersson, R, Vitezic, M, Rennie, S, Chen, Y, Vitting-Seerup, K, Lagoni, E, Boyd, M, Lange, J B, de Hoon, M J L, Kawaji, H, Lassmann, T, FANTOM Consortium, Hayashizaki, Y, Forrest, A R R, Carninci, P & Sandelin, A G 2016, ' On-the-fly selection of cell-specific enhancers, genes, miRNAs and proteins across the human body using SlideBase ', Database: The Journal of Biological Databases and Curation, vol. 2016, no. 0, baw144 . https://doi.org/10.1093/database/baw144

7 .

JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles

저자: by Ge Tan; Xiaobei Zhao; Albin Sandelin; Chih-Yu Chen; Rebecca Worsley-Hunt, et al.
소스: Nucleic Acids Research
Nucleic Acids Research, Oxford University Press, 2014, 42 (1), pp.D142-7. ⟨10.1093/nar/gkt997⟩
Nucleic Acids Research, 2014, 42 (1), pp.D142-7. ⟨10.1093/nar/gkt997⟩
Nucleic Acids Research; Vol 42
Nucleic Acids Research D1 (42), D142-D147. (2014)
Mathelier, A, Zhao, X, Zhang, A W, Parcy, F, Worsley-Hunt, R, Arenillas, D J, Buchman, S, Chen, C, Chou, A, Ienasescu, H-I, Lim, J, Shyr, C, Tan, G, Zhou, M, Lenhard, B, Sandelin, A G & Wasserman, W W 2014, ' JASPAR 2014 : an extensively expanded and updated open-access database of transcription factor binding profiles ', Nucleic Acids Research, vol. 42, pp. D142-D147 . https://doi.org/10.1093/nar/gkt997
D142-D147

7 .

Tools and data services registry: a community effort to document bioinformatics resources

저자: by Callum Smith; Paolo Uva; Thomas Gatter; Peter Løngreen; Peter Juvan, et al.
소스: Nucleic Acids Research, vol. 44, no. D1, pp. D38-D47
Nucleic Acids Research
Nucleic acids research 44 (2016): D38–D47. doi:10.1093/nar/gkv1116
info:cnr-pdr/source/autori:Ison, Jon; Rapacki, Kristoffer; Ménager, Hervé; Kala?, Matú?; Rydza, Emil; Chmura, Piotr; Anthon, Christian; Beard, Niall; Berka, Karel; Bolser, Dan; Booth, Tim; Bretaudeau, Anthony; Brezovsky, Jan; Casadio, Rita; Cesareni, Gianni; Coppens, Frederik; Cornell, Michael; Cuccuru, Gianmauro; Davidsen, Kristian; Della Vedova, Gianluca; Dogan, Tunca; Doppelt-Azeroual, Olivia; Emery, Laura; Gasteiger, Elisabeth; Gatter, Thomas; Goldberg, Tatyana; Grosjean, Marie; Gruüing, Björn; Helmer-Citterich, Manuela; Ienasescu, Hans; Ioannidis, Vassilios; Jespersen, Martin Closter; Jimenez, Rafael; Juty, Nick; Juvan, Peter; Koch, Maximilian; Laibe, Camille; Li, Jing Woei; Licata, Luana; Mareuil, Fabien; Mi?eti?, Ivan; Friborg, Rune Møllegaard; Moretti, Sebastien; Morris, Chris; Möller, Steffen; Nenadic, Aleksandra; Peterson, Hedi; Profiti, Giuseppe; Rice, Peter; Romano, Paolo; Roncaglia, Paola; Saidi, Rabie; Schafferhans, Andrea; Schwämmle, Veit; Smith, Callum; Sperotto, Maria Maddalena; Stockinger, Heinz; Var?ková, Radka Svobodová; Tosatto, Silvio C.E.; De La Torre, Victor; Uva, Paolo; Via, Allegra; Yachdav, Guy; Zambelli, Federico; Vriend, Gert; Rost, Burkhard; Parkinson, Helen; Løngreen, Peter; Brunak, Søren/titolo:Tools and data services registry: A community effort to document bioinformatics resources/doi:10.1093%2Fnar%2Fgkv1116/rivista:Nucleic acids research/anno:2016/pagina_da:D38/pagina_a:D47/intervallo_pagine:D38–D47/volume:44
Nucleic Acids Research, Oxford University Press, 2016, 44 (D1), pp.D38-47. ⟨10.1093/nar/gkv1116⟩
NUCLEIC ACIDS RESEARCH
Møllegaard Friborg, R, Jon Ison, Kristoffer Rapacki, Hervé Ménager, Matúš Kalaš, Emil Rydza, Piotr Chmura, Christian Anthon, Niall Beard, Karel Berka, Dan Bolser, Tim Booth, Anthony Bretaudeau, Jan Brezovsky, Rita Casadio, Gianni Cesareni, Frederik Coppens, Michael Cornell, Gianmauro Cuccuru, Kristian Davidsen, Gianluca Della Vedova, Tunca Dogan, Olivia Doppelt-Azeroual, Laura Emery, Elisabeth Gasteiger, Thomas Gatter, Tatyana Goldberg, Marie Grosjean, Björn Grüning, Manuela Helmer-Citterich, Hans Ienasescu, Vassilios Ioannidis, Martin Closter Jespersen, Rafael Jimenez, Nick Juty, Peter Juvan, Maximilian Koch, Camille Laibe, Jing-Woei Li, Luana Licata, Fabien Mareuil, Ivan Mičetić & Sebastien Moretti, Chris Morris, Steffen Möller, Aleksandra Nenadic, Hedi Peterson, Giuseppe Profiti, Peter Rice, Paolo Romano, Paola Roncaglia, Rabie Saidi, Andrea Schafferhans, Veit Schwämmle, Callum Smith, Maria Maddalena Sperotto, Heinz Stockinger, Radka Svobodová Vařeková, Silvio C.E. Tosatto, Victor de la Torre, Paolo Uva, Allegra Via, Guy Yachdav, Federico Zambelli, Gert Vriend, Burkhard Rost, Helen Parkinson, Peter Løngreen, Søren Brunak 2015, ' Tools and data services registry: a community effort to document bioinformatics resources ', Nucleic Acids Research, vol. 44, no. D1, pp. D38-D47 . https://doi.org/10.1093/nar/gkv1116
Ison, J, Rapacki, K, Ménager, H, Kalaš, M, Rydza, E, Chmura, P, Anthon, C, Beard, N, Berka, K, Bolser, D, Booth, T, Bretaudeau, A, Brezovsky, J, Casadio, R, Cesareni, G, Coppens, F, Cornell, M, Cuccuru, G, Davidsen, K, Vedova, G D, Dogan, T, Doppelt-Azeroual, O, Emery, L, Gasteiger, E, Gatter, T, Goldberg, T, Grosjean, M, Grüning, B, Helmer-Citterich, M, Ienasescu, H-I, Ioannidis, V, Jespersen, M C, Jimenez, R, Juty, N, Juvan, P, Koch, M, Laibe, C, Li, J-W, Licata, L, Mareuil, F, Mičetić, I, Friborg, R M, Moretti, S, Morris, C, Möller, S, Nenadic, A, Peterson, H, Profiti, G, Rice, P, Romano, P, Roncaglia, P, Saidi, R, Schafferhans, A, Schwämmle, V, Smith, C, Sperotto, M M, Stockinger, H, Vařeková, R S, Tosatto, S C E, de la Torre, V, Uva, P, Via, A, Yachdav, G, Zambelli, F, Vriend, G, Rost, B, Parkinson, H, Løngreen, P & Brunak, S 2016, ' Tools and data services registry : a community effort to document bioinformatics resources ', Nucleic Acids Research, vol. 44, no. D1, pp. D38-D47 . https://doi.org/10.1093/nar/gkv1116
Ison, J, Rapacki, K, Ménager, H, Kalaš, M, Rydza, E, Chmura, P, Anthon, C, Beard, N, Berka, K, Bolser, D, Booth, T, Bretaudeau, A, Brezovsky, J, Casadio, R, Cesareni, G, Coppens, F, Cornell, M, Cuccuru, G, Davidsen, K, Vedova, G D, Dogan, T, Doppelt-Azeroual, O, Emery, L, Gasteiger, E, Gatter, T, Goldberg, T, Grosjean, M, Grüning, B, Helmer-Citterich, M, Ienasescu, H, Ioannidis, V, Jespersen, M C, Jimenez, R, Juty, N, Juvan, P, Koch, M, Laibe, C, Li, J-W, Licata, L, Mareuil, F, Mičetić, I, Friborg, R M, Moretti, S, Morris, C, Möller, S, Nenadic, A, Peterson, H, Profiti, G, Rice, P, Romano, P, Roncaglia, P, Saidi, R, Schafferhans, A, Schwämmle, V, Smith, C, Sperotto, M M, Stockinger, H, Vařeková, R S, Tosatto, S C E, de la Torre, V, Uva, P, Via, A, Yachdav, G, Zambelli, F, Vriend, G, Rost, B, Parkinson, H, Løngreen, P & Brunak, S 2016, ' Tools and data services registry : a community effort to document bioinformatics resources ', Nucleic Acids Research, vol. 44, no. D1, pp. D38–D47 . https://doi.org/10.1093/nar/gkv1116
Nucleic Acids Research, 2016, 44 (D1), pp.D38-47. ⟨10.1093/nar/gkv1116⟩
Nucleic Acids Research, 44, D1, pp. D38-47
Nucleic Acids Research, 44, D38-47
Nucleic Acids Research D1 (44), D38-47. (2016)
Ison, J, Rapacki, K, Ménager, H, Kalaš, M, Rydza, E K, Chmura, P J, Anthon, C, Beard, N, Berka, K, Bolser, D, Booth, T, Bretaudeau, A, Brezovsky, J, Casadio, R, Cesareni, G, Coppens, F, Cornell, M, Cuccuru, G, Davidsen, K, Vedova, G D, Dogan, T, Doppelt-Azeroual, O, Emery, L, Gasteiger, E, Gatter, T, Goldberg, T, Grosjean, M, Grüning, B, Helmer-Citterich, M, Ienasescu, H, Ioannidis, V, Jespersen, M C, Jimenez, R, Juty, N, Juvan, P, Koch, M, Laibe, C, Li, J-W, Licata, L, Mareuil, F, Mičetić, I, Friborg, R M, Moretti, S, Morris, C, Möller, S, Nenadic, A, Peterson, H, Profiti, G, Rice, P, Romano, P, Roncaglia, P, Saidi, R, Schafferhans, A, Schwämmle, V, Smith, C, Sperotto, M M, Stockinger, H, Vařeková, R S, Tosatto, S C E, de la Torre, V, Uva, P, Via, A, Yachdav, G, Zambelli, F, Vriend, G, Rost, B, Parkinson, H, Løngreen, P & Brunak, S 2016, ' Tools and data services registry : a community effort to document bioinformatics resources ', Nucleic Acids Research, vol. 44, no. D1, gkv1116, pp. D38-D47 . https://doi.org/10.1093/nar/gkv1116

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