doi: 10.1038/s41592-025-02810-3.
Online ahead of print.
Translon: a single term for translated regions
Michał I Świrski
1
, Jack A S Tierney
2
3
, M Mar Albà
4
5
, Dmitry E Andreev
6
7
, Julie L Aspden
8
9
10
, John F Atkins
11
12
, Michal Bassani-Sternberg
13
14
, Marla J Berry
15
, Stefano Biffo
16
17
, Kathleen Boris-Lawrie
18
, Mark Borodovsky
19
20
, Ian Brierley
21
, Matthew Brook
22
, Marie A Brunet
23
24
, Janusz M Bujnicki
25
, Neva Caliskan
26
27
, Lorenzo Calviello
28
, Anne-Ruxandra Carvunis
29
30
, Jamie H D Cate
31
, Can Cenik
32
, Kung Yao Chang
33
, Yiwen Chen
34
, Sonia Chothani
35
, Jyoti S Choudhary
36
, Patricia L Clark
37
, Jim Clauwaert
38
, Lynn Cooley
39
, Erik Dassi
40
, Kellie Dean
11
, Jean-Jacques Diaz
41
, Christoph Dieterich
42
43
, Rivka Dikstein
44
, Jonathan D Dinman
45
46
, Sergey E Dmitriev
7
47
, Olga A Dontsova
6
48
49
, Christine M Dunham
50
, Sandeep M Eswarappa
51
, Philip J Farabaugh
52
, Pouya Faridi
53
54
, Ivo Fierro-Monti
55
, Andrew E Firth
21
, David Gatfield
56
, Fátima Gebauer
57
58
, Mikhail S Gelfand
49
, Nicola K Gray
59
, Rachel Green
60
, Chris H Hill
61
62
63
, Ya-Ming Hou
64
, Norbert Hübner
65
66
67
68
, Zoya Ignatova
69
, Pavel Ivanov
70
71
, Shintaro Iwasaki
72
73
, Rory Johnson
74
, Ahmad Jomaa
75
76
, Marko Jovanovic
77
, Irwin Jungreis
78
79
, Manolis Kellis
78
79
, Jeffrey S Kieft
80
, Alex V Kochetov
81
, Eugene V Koonin
82
, Andrei A Korostelev
83
, Joanna Kufel
84
, Ivan V Kulakovskiy
85
86
, Leo Kurian
87
88
89
, Denis L J Lafontaine
90
91
, Ola Larsson
92
, Gary Loughran
93
, Julius Lukeš
94
95
, Marco Mariotti
96
, Elena S Martens-Uzunova
97
, Thomas F Martinez
98
99
100
, Akinobu Matsumoto
101
, Joel McManus
102
103
, Jan Medenbach
104
, Sergey V Melnikov
105
, Gerben Menschaert
106
, Catharina Merchante
107
, Martin Mikl
108
, W Allen Miller
109
, Oliver Mühlemann
110
, Olivier Namy
111
, Danny D Nedialkova
112
113
, Jozef Nosek
114
, Sandra Orchard
55
, Petar Ozretić
115
, Mihaela Pertea
116
, Dmitri D Pervouchine
49
, Luísa Romão
117
118
, David Ron
119
, Xavier Roucou
120
121
, Maria P Rubtsova
6
48
, Jorge Ruiz-Orera
65
, Alan Saghatelian
122
123
, Steven L Salzberg
116
124
, Lucia A Seale
15
, Cathal Seoighe
125
, Petr V Sergiev
7
, Premal Shah
126
, Nikolay Shirokikh
127
, Sarah A Slavoff
128
, Nahum Sonenberg
129
130
, Timothy J Stasevich
131
, Roman J Szczesny
132
, Tiina Tamm
133
, Marek Tchórzewski
134
, Ivan Topisirovic
129
135
, Michel L Tremblay
129
130
, Tamir Tuller
136
, Igor Ulitsky
137
, Leoš Shivaya Valášek
138
, Petra Van Damme
139
, Gabriella Viero
140
, Juan Antonio Vizcaino
55
, Christine Vogel
141
, Edward W J Wallace
142
, Jonathan S Weissman
143
144
145
, Eric Westhof
146
147
, Nicola Whiffin
148
149
, Daniel N Wilson
69
, Zhi Xie
150
, Jonathan W Yewdell
151
, Martina M Yordanova
11
, Chien-Hung Yu
152
153
, Vyacheslav Yurchenko
154
, Bojan Zagrovic
155
; TRANSLACORE; Eivind Valen
156
157
, Pavel V Baranov
158
Collaborators,
Affiliations
Collaborators
-
TRANSLACORE:
Maria Inês Almeida, Nese Atabey, Nikolaos Balatsos, Pavel Baranov, Anca Simona Bojan, Theodora Choli-Papadopoulou, Pierre Close, Victoria Cowling, Erik Dassi, Alexandre David, Kellie Dean, Jean-Jacques Diaz, Aleksandar Eftimov, Fátima Gebauer, Mark Helm, Cristina-Adela Iuga, Dana Jurkovičová, Arvydas Kanopka, Denis Lafontaine, Elena Martens-Uzunova, Lucia Messingerová, Henrik Nielsen, Petar Ozretić, Mehmet Ozturk, Vicent Pelechano, Marianna Penzo, Paulina Podszywalow-Bartnicka, Lejla Pojskić, John Le Quesne, Luísa Romão, Barak Rotblat, Ariel Stanhill, Georg Stoecklin, Tiina Tamm, Marek Tchorzewski, Vladimir Trajković, Leos Shivaya Valasek, Eivind Valen, Sinisa Volarevic, Ljubica Vucicevic, Kathleen Watt, Anne Willis, Masa Zdralevic, Taja Železnik Ramuta
Affiliations
- 1 Faculty of Biology, Institute of Genetics and Biotechnology, University of Warsaw, Warsaw, Poland. michal.swirski@uw.edu.pl.
- 2 School of Biochemistry and Cell Biology, University College Cork, Cork, Ireland. jackt@ebi.ac.uk.
- 3 European Molecular Biology Laboratory-European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, UK. jackt@ebi.ac.uk.
- 4 Hospital del Mar Research Institute, Barcelona, Spain.
- 5 Catalan Institution for Research and Advanced Studies, Barcelona, Spain.
- 6 Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Moscow, Russia.
- 7 Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, Russia.
- 8 School of Molecular and Cellular Biology, Faculty of Biological Sciences, University of Leeds, Leeds, UK.
- 9 Leeds Omics, University of Leeds, Leeds, UK.
- 10 Astbury Centre for Structural Molecular Biology, University of Leeds, Leeds, UK.
- 11 School of Biochemistry and Cell Biology, University College Cork, Cork, Ireland.
- 12 Department of Human Genetics, University of Utah, Salt Lake City, UT, USA.
- 13 University Hospital of Lausanne, Lausanne, Switzerland.
- 14 Ludwig Institute for Cancer Research, Lausanne, Switzerland.
- 15 Pacific Biosciences Research Center, University of Hawaii at Manoa, Honolulu, HI, USA.
- 16 National Institute of Molecular Genetics, Milan, Italy.
- 17 University of Milan, Milan, Italy.
- 18 Department of Veterinary and Biomedical Sciences, University of Minnesota, Saint Paul, MN, USA.
- 19 Wallace H. Coulter Department of Biomedical Engineering, Georgia Tech, Atlanta, GA, USA.
- 20 School of Computational Science and Engineering, Georgia Tech, Atlanta, GA, USA.
- 21 Division of Virology, Department of Pathology, University of Cambridge, Cambridge, UK.
- 22 Centre for Cardiovascular Sciences, Institute for Neuroscience and Cardiovascular Research, University of Edinburgh, Edinburgh, UK.
- 23 University of Sherbrooke, Sherbrooke, Quebec, Canada.
- 24 Cancer Research Institute of the University of Sherbrooke (IRCUS), Sherbrooke, Quebec, Canada.
- 25 International Institute of Molecular and Cell Biology in Warsaw, Warsaw, Poland.
- 26 Regensburg Center for Biochemistry (RCB), University of Regensburg, Regensburg, Germany.
- 27 Helmholtz Institute for RNA-Based Infection Research, Helmholtz Centre for Infection Research (HIRI-HZI), Würzburg, Germany.
- 28 Human Technopole, Milan, Italy.
- 29 Department of Computational and Systems Biology, School of Medicine, University of Pittsburgh, Pittsburgh, PA, USA.
- 30 Pittsburgh Center for Evolutionary Biology and Medicine (CEBaM), School of Medicine, University of Pittsburgh, Pittsburgh, PA, USA.
- 31 University of California Berkeley, Berkeley, CA, USA.
- 32 Department of Molecular Biosciences, University of Texas at Austin, Austin, TX, USA.
- 33 Graduate Institute of Biochemistry, National Chung-Hsing University, Taichung, Taiwan.
- 34 Department of Bioinformatics & Computational Biology, University of Texas MD Anderson Cancer Center, Houston, TX, USA.
- 35 Centre for Computational Biology, Duke-NUS Medical School, Singapore, Singapore.
- 36 Functional Proteomics team, Chester Beatty Laboratories, The Institute of Cancer Research, London, UK.
- 37 Department of Chemistry & Biochemistry, University of Notre Dame, Notre Dame, IN, USA.
- 38 University of Michigan, Ann Arbor, MI, USA.
- 39 Department of Genetics, Yale University School of Medicine, New Haven, CT, USA.
- 40 Department of Cellular, Computational and Integrative Biology (CIBIO), University of Trento, Trento, Italy.
- 41 Centre de Recherche en Cancérologie de Lyon, Inserm U1052, CNRS UMR5286, Université de Lyon, Université Claude Bernard Lyon, Centre Léon Bérard, LabEx Dev2CAN, Lyon, France.
- 42 Klaus Tschira Institute for Integrative Computational Cardiology, Heidelberg, Germany.
- 43 German Center for Cardiovascular Research (DZHK) - partner site Heidelberg/Mannheim, Heidelberg, Germany.
- 44 Department of Biomolecular Sciences, Weizmann Institute of Science, Rehovot, Israel.
- 45 Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, MD, USA.
- 46 Institute for Bioscience and Biotechnology Research, Rockville, MD, USA.
- 47 Faculty of Bioengineering and Bioinformatics, Lomonosov Moscow State University, Moscow, Russia.
- 48 Faculty of Chemistry, Lomonosov Moscow State University, Moscow, Russia.
- 49 Center of Life Sciences, Skolkovo Institute of Science and Technology, Moscow, Russia.
- 50 Department of Chemistry, Emory University, Atlanta, GA, USA.
- 51 Department of Biochemistry, Indian Institute of Science, Bangalore, India.
- 52 University of Maryland Baltimore County, Baltimore, MD, USA.
- 53 Centre for Cancer Research, Hudson Institute of Medical Research, Melbourne, Victoria, Australia.
- 54 Monash Proteomics and Metabolomics Platform, Department of Medicine, School of Clinical Sciences, Monash University, Melbourne, Victoria, Australia.
- 55 European Molecular Biology Laboratory-European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, UK.
- 56 Center for Integrative Genomics, University of Lausanne, Lausanne, Switzerland.
- 57 Centre for Genomic Regulation (CRG), Barcelona Institute of Science and Technology, Barcelona, Spain.
- 58 Universitat Pompeu Fabra (UPF), Barcelona, Spain.
- 59 Centre for Reproductive Health, Institute for Regeneration and Repair, University of Edinburgh, Edinburgh, UK.
- 60 Howard Hughes Medical Institute, Johns Hopkins University School of Medicine, Baltimore, MD, USA.
- 61 Department of Biology, University of York, York, UK.
- 62 York Structural Biology Laboratory, University of York, York, UK.
- 63 York Biomedical Research Institute, University of York, York, UK.
- 64 Department of Biochemistry and Molecular Biology, Thomas Jefferson University, Philadelphia, PA, USA.
- 65 Max Delbrück Center for Molecular Medicine in the Helmholtz Association (MDC), Berlin, Germany.
- 66 Charite - Universitätsmedizin Berlin, Berlin, Germany.
- 67 Helmholtz Institute for Translational AngioCardioScience (HI-TAC) of the Max Delbrück Center for Molecular Medicine in the Helmholtz Association (MDC) at Heidelberg University, Heidelberg, Germany.
- 68 German Center for Cardiovascular Research (DZHK) - partner site Berlin, Berlin, Germany.
- 69 Institute for Biochemistry and Molecular Biology, University of Hamburg, Hamburg, Germany.
- 70 Division of Rheumatology, Inflammation and Immunity, Brigham and Women's Hospital, Boston, MA, USA.
- 71 Department of Medicine, Harvard Medical School, Boston, MA, USA.
- 72 RNA Systems Biochemistry Laboratory, Pioneering Research Institute, RIKEN, Wako, Japan.
- 73 Department of Computational Biology and Medical Sciences, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Japan.
- 74 School of Biology and Environmental Science, University College Dublin, Dublin, Ireland.
- 75 Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA, USA.
- 76 Department of Biochemistry and Molecular Genetics, University of Virginia, Charlottesville, VA, USA.
- 77 Columbia University, New York, NY, USA.
- 78 Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge, MA, USA.
- 79 Broad Institute of MIT and Harvard, Cambridge, MA, USA.
- 80 New York Structural Biology Center, New York, NY, USA.
- 81 Institute of Cytology & Genetics, Novosibirsk, Russia.
- 82 Computational Biology Branch, Division of Intramural Research, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.
- 83 RNA Therapeutics Institute, University of Massachusetts Chan Medical School, Worcester, MA, USA.
- 84 Faculty of Biology, Institute of Genetics and Biotechnology, University of Warsaw, Warsaw, Poland.
- 85 Institute of Protein Research, Russian Academy of Sciences, Pushchino, Russia.
- 86 Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia.
- 87 Institute for Cardiovascular Physiology, Goethe University Frankfurt, Frankfurt, Germany.
- 88 German Center for Cardiovascular Research (DZHK), Partner Site Rhein-Main, Frankfurt, Germany.
- 89 Cardio-Pulmonary Institute (CPI), Goethe University Frankfurt, Frankfurt, Germany.
- 90 RNA Molecular Biology, Université libre de Bruxelles, Gosselies, Belgium.
- 91 Fonds de la Recherche Scientifique (F.R.S./FNRS), Brussels, Belgium.
- 92 Department of Oncology-Pathology, Science for Life Laboratory, Karolinska Institutet, Stockholm, Sweden.
- 93 EIRNA Bio, Cork, Ireland.
- 94 Institute of Parasitology, Biology Centre, České Budějovice, Czech Republic.
- 95 Faculty of Science, University of South Bohemia, České Budějovice, Czech Republic.
- 96 Department of Genetics, Microbiology and Statistics, Universitat de Barcelona, Barcelona, Spain.
- 97 Erasmus MC Cancer Institute, University Medical Center Rotterdam, Department of Urology, Rotterdam, the Netherlands.
- 98 Department of Pharmaceutical Sciences, University of California, Irvine, Irvine, CA, USA.
- 99 Department of Biological Chemistry, University of California, Irvine, Irvine, CA, USA.
- 100 Chao Family Comprehensive Cancer Center, University of California, Irvine, Irvine, CA, USA.
- 101 Division of Biological Science, Graduate School of Science, Nagoya University, Nagoya, Japan.
- 102 Department of Biological Sciences, Carnegie Mellon University, Pittsburgh, PA, USA.
- 103 Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA, USA.
- 104 University Hospital RWTH Aachen, Aachen, Germany.
- 105 Biosciences Institute, Newcastle University, Newcastle upon Tyne, UK.
- 106 Faculty of Bioscience Engineering, Department of Data Analysis and Mathematical Modelling, Ghent University, Ghent, Belgium.
- 107 Instituto de Hortofruticultura Subtropical y Mediterránea La Mayora (IHSM-UMA-CSIC), Málaga, Spain.
- 108 Department of Human Biology, University of Haifa, Haifa, Israel.
- 109 Plant Pathology, Entomology & Microbiology Department, Iowa State University, Ames, Iowa, USA.
- 110 Department of Chemistry, Biochemistry and Pharmaceutical Sciences, University of Bern, Bern, Switzerland.
- 111 CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), Université Paris-Saclay, Gif-sur-Yvette, France.
- 112 Max Planck Institute of Biochemistry, Martinsried, Germany.
- 113 Department of Bioscience, TUM School of Natural Sciences, Garching, Germany.
- 114 Faculty of Natural Sciences, Department of Biochemistry, Comenius University Bratislava, Bratislava, Slovakia.
- 115 Laboratory for Hereditary Cancer, Division of Molecular Medicine, Ruđer Bošković Institute, Zagreb, Croatia.
- 116 Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, USA.
- 117 Instituto Nacional de Saúde Doutor Ricardo Jorge, Lisboa, Portugal.
- 118 BioISI-Biosystems Integrative Sciences Institute, Faculty of Sciences, University of Lisboa, Lisboa, Portugal.
- 119 Cambridge Institute for Medical Research, Department of Clinical Biochemistry, University of Cambridge, Cambridge, UK.
- 120 Department of Biochemistry and Functional Genomics, Université de Sherbrooke, Sherbrooke, Quebec, Canada.
- 121 Centre de Recherche du Centre Hospitalier Universitaire de Sherbrooke (CRCHUS), Sherbrooke, Quebec, Canada.
- 122 Salk Institute, La Jolla, CA, USA.
- 123 University of California, San Diego, La Jolla, CA, USA.
- 124 Center for Computational Biology, Johns Hopkins University, Baltimore, MD, USA.
- 125 School of Mathematical and Statistical Sciences, University of Galway, Galway, Ireland.
- 126 Rutgers University, Piscataway, NJ, USA.
- 127 School of Human Sciences, University of Western Australia, Perth, Western Australia, Australia.
- 128 Department of Chemistry, Yale University, New Haven, CT, USA.
- 129 Department of Biochemistry, McGill University, Montréal, Quebec, Canada.
- 130 Rosalind and Morris Goodman Cancer Research Centre, McGill University, Montréal, Quebec, Canada.
- 131 Department of Biochemistry and Molecular Biology, Colorado State University, Fort Collins, CO, USA.
- 132 Laboratory of RNA Biology, Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland.
- 133 Institute of Molecular and Cell Biology, University of Tartu, Tartu, Estonia.
- 134 Department of Molecular Biology, Institute of Biological Sciences, Maria Curie-Skłodowska University, Lublin, Poland.
- 135 Lady Davis Institute, Gerald Bronfman Department of Oncology, Division of Experimental Medicine, McGill University, Montréal, Quebec, Canada.
- 136 Department of Biomedical Engineering, Tel-Aviv University, Tel Aviv, Israel.
- 137 Department of Immunology and Regenerative Biology, Weizmann Institute of Science, Rehovot, Israel.
- 138 Laboratory of Regulation of Gene Expression, Institute of Microbiology of the Czech Academy of Sciences, Prague, Czech Republic.
- 139 iRIP Unit, Laboratory of Microbiology, Department of Biochemistry and Microbiology, Ghent University, Ghent, Belgium.
- 140 Institute of Biophysics CNR, Trento, Italy.
- 141 Department of Biology, New York University, New York, NY, USA.
- 142 School of Biological Sciences, University of Edinburgh, Edinburgh, UK.
- 143 Whitehead Institute, Cambridge, MA, USA.
- 144 Department of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA.
- 145 Howard Hughes Medical Institute, Chevy Chase, MD, USA.
- 146 Université de Strasbourg, Institut de Biologie Moléculaire et Cellulaire, Architecture et Réactivité de l'ARN, CNRS UPR9002, Strasbourg, France.
- 147 Engineering Research Center of Clinical Functional Materials and Diagnosis & Treatment Devices of Zhejiang Province, Wenzhou Institute, University of Chinese Academy of Sciences, Wenzhou, China.
- 148 Big Data Institute, University of Oxford, Oxford, UK.
- 149 Centre for Human Genetics, University of Oxford, Oxford, UK.
- 150 State Key Laboratory of Ophthalmology, Zhongshan Ophthalmic Center, Sun Yat-sen University, Guangzhou, China.
- 151 Cellular Biology Section, Laboratory of Viral Diseases, Division of Intramural Research, National Institute of Allergy and Infectious Diseases, Bethesda, MD, USA.
- 152 Department of Biochemistry and Molecular Biology, National Cheng Kung University, Tainan, Taiwan.
- 153 Institute of Basic Medical Sciences, College of Medicine, National Cheng Kung University, Tainan, Taiwan.
- 154 Life Science Research Centre, Faculty of Science, University of Ostrava, Ostrava, Czech Republic.
- 155 Department of Structural and Computational Biology, Max Perutz Labs, University of Vienna, Vienna, Austria.
- 156 Department of Biosciences, University of Oslo, Oslo, Norway. eivind.valen@ibv.uio.no.
- 157 Computational Biology Unit, Department of Informatics, University of Bergen, Bergen, Norway. eivind.valen@ibv.uio.no.
- 158 School of Biochemistry and Cell Biology, University College Cork, Cork, Ireland. p.baranov@ucc.ie.
- PMID: 40890551
- DOI: 10.1038/s41592-025-02810-3
Item in Clipboard
Translon: a single term for translated regions
Michał I Świrski et al.
Nat Methods.
.
Display options
Format
doi: 10.1038/s41592-025-02810-3.
Online ahead of print.
Authors
Michał I Świrski
1
, Jack A S Tierney
2
3
, M Mar Albà
4
5
, Dmitry E Andreev
6
7
, Julie L Aspden
8
9
10
, John F Atkins
11
12
, Michal Bassani-Sternberg
13
14
, Marla J Berry
15
, Stefano Biffo
16
17
, Kathleen Boris-Lawrie
18
, Mark Borodovsky
19
20
, Ian Brierley
21
, Matthew Brook
22
, Marie A Brunet
23
24
, Janusz M Bujnicki
25
, Neva Caliskan
26
27
, Lorenzo Calviello
28
, Anne-Ruxandra Carvunis
29
30
, Jamie H D Cate
31
, Can Cenik
32
, Kung Yao Chang
33
, Yiwen Chen
34
, Sonia Chothani
35
, Jyoti S Choudhary
36
, Patricia L Clark
37
, Jim Clauwaert
38
, Lynn Cooley
39
, Erik Dassi
40
, Kellie Dean
11
, Jean-Jacques Diaz
41
, Christoph Dieterich
42
43
, Rivka Dikstein
44
, Jonathan D Dinman
45
46
, Sergey E Dmitriev
7
47
, Olga A Dontsova
6
48
49
, Christine M Dunham
50
, Sandeep M Eswarappa
51
, Philip J Farabaugh
52
, Pouya Faridi
53
54
, Ivo Fierro-Monti
55
, Andrew E Firth
21
, David Gatfield
56
, Fátima Gebauer
57
58
, Mikhail S Gelfand
49
, Nicola K Gray
59
, Rachel Green
60
, Chris H Hill
61
62
63
, Ya-Ming Hou
64
, Norbert Hübner
65
66
67
68
, Zoya Ignatova
69
, Pavel Ivanov
70
71
, Shintaro Iwasaki
72
73
, Rory Johnson
74
, Ahmad Jomaa
75
76
, Marko Jovanovic
77
, Irwin Jungreis
78
79
, Manolis Kellis
78
79
, Jeffrey S Kieft
80
, Alex V Kochetov
81
, Eugene V Koonin
82
, Andrei A Korostelev
83
, Joanna Kufel
84
, Ivan V Kulakovskiy
85
86
, Leo Kurian
87
88
89
, Denis L J Lafontaine
90
91
, Ola Larsson
92
, Gary Loughran
93
, Julius Lukeš
94
95
, Marco Mariotti
96
, Elena S Martens-Uzunova
97
, Thomas F Martinez
98
99
100
, Akinobu Matsumoto
101
, Joel McManus
102
103
, Jan Medenbach
104
, Sergey V Melnikov
105
, Gerben Menschaert
106
, Catharina Merchante
107
, Martin Mikl
108
, W Allen Miller
109
, Oliver Mühlemann
110
, Olivier Namy
111
, Danny D Nedialkova
112
113
, Jozef Nosek
114
, Sandra Orchard
55
, Petar Ozretić
115
, Mihaela Pertea
116
, Dmitri D Pervouchine
49
, Luísa Romão
117
118
, David Ron
119
, Xavier Roucou
120
121
, Maria P Rubtsova
6
48
, Jorge Ruiz-Orera
65
, Alan Saghatelian
122
123
, Steven L Salzberg
116
124
, Lucia A Seale
15
, Cathal Seoighe
125
, Petr V Sergiev
7
, Premal Shah
126
, Nikolay Shirokikh
127
, Sarah A Slavoff
128
, Nahum Sonenberg
129
130
, Timothy J Stasevich
131
, Roman J Szczesny
132
, Tiina Tamm
133
, Marek Tchórzewski
134
, Ivan Topisirovic
129
135
, Michel L Tremblay
129
130
, Tamir Tuller
136
, Igor Ulitsky
137
, Leoš Shivaya Valášek
138
, Petra Van Damme
139
, Gabriella Viero
140
, Juan Antonio Vizcaino
55
, Christine Vogel
141
, Edward W J Wallace
142
, Jonathan S Weissman
143
144
145
, Eric Westhof
146
147
, Nicola Whiffin
148
149
, Daniel N Wilson
69
, Zhi Xie
150
, Jonathan W Yewdell
151
, Martina M Yordanova
11
, Chien-Hung Yu
152
153
, Vyacheslav Yurchenko
154
, Bojan Zagrovic
155
; TRANSLACORE; Eivind Valen
156
157
, Pavel V Baranov
158
Collaborators
-
TRANSLACORE:
Maria Inês Almeida, Nese Atabey, Nikolaos Balatsos, Pavel Baranov, Anca Simona Bojan, Theodora Choli-Papadopoulou, Pierre Close, Victoria Cowling, Erik Dassi, Alexandre David, Kellie Dean, Jean-Jacques Diaz, Aleksandar Eftimov, Fátima Gebauer, Mark Helm, Cristina-Adela Iuga, Dana Jurkovičová, Arvydas Kanopka, Denis Lafontaine, Elena Martens-Uzunova, Lucia Messingerová, Henrik Nielsen, Petar Ozretić, Mehmet Ozturk, Vicent Pelechano, Marianna Penzo, Paulina Podszywalow-Bartnicka, Lejla Pojskić, John Le Quesne, Luísa Romão, Barak Rotblat, Ariel Stanhill, Georg Stoecklin, Tiina Tamm, Marek Tchorzewski, Vladimir Trajković, Leos Shivaya Valasek, Eivind Valen, Sinisa Volarevic, Ljubica Vucicevic, Kathleen Watt, Anne Willis, Masa Zdralevic, Taja Železnik Ramuta
Affiliations
- 1 Faculty of Biology, Institute of Genetics and Biotechnology, University of Warsaw, Warsaw, Poland. michal.swirski@uw.edu.pl.
- 2 School of Biochemistry and Cell Biology, University College Cork, Cork, Ireland. jackt@ebi.ac.uk.
- 3 European Molecular Biology Laboratory-European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, UK. jackt@ebi.ac.uk.
- 4 Hospital del Mar Research Institute, Barcelona, Spain.
- 5 Catalan Institution for Research and Advanced Studies, Barcelona, Spain.
- 6 Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Moscow, Russia.
- 7 Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, Russia.
- 8 School of Molecular and Cellular Biology, Faculty of Biological Sciences, University of Leeds, Leeds, UK.
- 9 Leeds Omics, University of Leeds, Leeds, UK.
- 10 Astbury Centre for Structural Molecular Biology, University of Leeds, Leeds, UK.
- 11 School of Biochemistry and Cell Biology, University College Cork, Cork, Ireland.
- 12 Department of Human Genetics, University of Utah, Salt Lake City, UT, USA.
- 13 University Hospital of Lausanne, Lausanne, Switzerland.
- 14 Ludwig Institute for Cancer Research, Lausanne, Switzerland.
- 15 Pacific Biosciences Research Center, University of Hawaii at Manoa, Honolulu, HI, USA.
- 16 National Institute of Molecular Genetics, Milan, Italy.
- 17 University of Milan, Milan, Italy.
- 18 Department of Veterinary and Biomedical Sciences, University of Minnesota, Saint Paul, MN, USA.
- 19 Wallace H. Coulter Department of Biomedical Engineering, Georgia Tech, Atlanta, GA, USA.
- 20 School of Computational Science and Engineering, Georgia Tech, Atlanta, GA, USA.
- 21 Division of Virology, Department of Pathology, University of Cambridge, Cambridge, UK.
- 22 Centre for Cardiovascular Sciences, Institute for Neuroscience and Cardiovascular Research, University of Edinburgh, Edinburgh, UK.
- 23 University of Sherbrooke, Sherbrooke, Quebec, Canada.
- 24 Cancer Research Institute of the University of Sherbrooke (IRCUS), Sherbrooke, Quebec, Canada.
- 25 International Institute of Molecular and Cell Biology in Warsaw, Warsaw, Poland.
- 26 Regensburg Center for Biochemistry (RCB), University of Regensburg, Regensburg, Germany.
- 27 Helmholtz Institute for RNA-Based Infection Research, Helmholtz Centre for Infection Research (HIRI-HZI), Würzburg, Germany.
- 28 Human Technopole, Milan, Italy.
- 29 Department of Computational and Systems Biology, School of Medicine, University of Pittsburgh, Pittsburgh, PA, USA.
- 30 Pittsburgh Center for Evolutionary Biology and Medicine (CEBaM), School of Medicine, University of Pittsburgh, Pittsburgh, PA, USA.
- 31 University of California Berkeley, Berkeley, CA, USA.
- 32 Department of Molecular Biosciences, University of Texas at Austin, Austin, TX, USA.
- 33 Graduate Institute of Biochemistry, National Chung-Hsing University, Taichung, Taiwan.
- 34 Department of Bioinformatics & Computational Biology, University of Texas MD Anderson Cancer Center, Houston, TX, USA.
- 35 Centre for Computational Biology, Duke-NUS Medical School, Singapore, Singapore.
- 36 Functional Proteomics team, Chester Beatty Laboratories, The Institute of Cancer Research, London, UK.
- 37 Department of Chemistry & Biochemistry, University of Notre Dame, Notre Dame, IN, USA.
- 38 University of Michigan, Ann Arbor, MI, USA.
- 39 Department of Genetics, Yale University School of Medicine, New Haven, CT, USA.
- 40 Department of Cellular, Computational and Integrative Biology (CIBIO), University of Trento, Trento, Italy.
- 41 Centre de Recherche en Cancérologie de Lyon, Inserm U1052, CNRS UMR5286, Université de Lyon, Université Claude Bernard Lyon, Centre Léon Bérard, LabEx Dev2CAN, Lyon, France.
- 42 Klaus Tschira Institute for Integrative Computational Cardiology, Heidelberg, Germany.
- 43 German Center for Cardiovascular Research (DZHK) - partner site Heidelberg/Mannheim, Heidelberg, Germany.
- 44 Department of Biomolecular Sciences, Weizmann Institute of Science, Rehovot, Israel.
- 45 Department of Cell Biology and Molecular Genetics, University of Maryland, College Park, MD, USA.
- 46 Institute for Bioscience and Biotechnology Research, Rockville, MD, USA.
- 47 Faculty of Bioengineering and Bioinformatics, Lomonosov Moscow State University, Moscow, Russia.
- 48 Faculty of Chemistry, Lomonosov Moscow State University, Moscow, Russia.
- 49 Center of Life Sciences, Skolkovo Institute of Science and Technology, Moscow, Russia.
- 50 Department of Chemistry, Emory University, Atlanta, GA, USA.
- 51 Department of Biochemistry, Indian Institute of Science, Bangalore, India.
- 52 University of Maryland Baltimore County, Baltimore, MD, USA.
- 53 Centre for Cancer Research, Hudson Institute of Medical Research, Melbourne, Victoria, Australia.
- 54 Monash Proteomics and Metabolomics Platform, Department of Medicine, School of Clinical Sciences, Monash University, Melbourne, Victoria, Australia.
- 55 European Molecular Biology Laboratory-European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, UK.
- 56 Center for Integrative Genomics, University of Lausanne, Lausanne, Switzerland.
- 57 Centre for Genomic Regulation (CRG), Barcelona Institute of Science and Technology, Barcelona, Spain.
- 58 Universitat Pompeu Fabra (UPF), Barcelona, Spain.
- 59 Centre for Reproductive Health, Institute for Regeneration and Repair, University of Edinburgh, Edinburgh, UK.
- 60 Howard Hughes Medical Institute, Johns Hopkins University School of Medicine, Baltimore, MD, USA.
- 61 Department of Biology, University of York, York, UK.
- 62 York Structural Biology Laboratory, University of York, York, UK.
- 63 York Biomedical Research Institute, University of York, York, UK.
- 64 Department of Biochemistry and Molecular Biology, Thomas Jefferson University, Philadelphia, PA, USA.
- 65 Max Delbrück Center for Molecular Medicine in the Helmholtz Association (MDC), Berlin, Germany.
- 66 Charite - Universitätsmedizin Berlin, Berlin, Germany.
- 67 Helmholtz Institute for Translational AngioCardioScience (HI-TAC) of the Max Delbrück Center for Molecular Medicine in the Helmholtz Association (MDC) at Heidelberg University, Heidelberg, Germany.
- 68 German Center for Cardiovascular Research (DZHK) - partner site Berlin, Berlin, Germany.
- 69 Institute for Biochemistry and Molecular Biology, University of Hamburg, Hamburg, Germany.
- 70 Division of Rheumatology, Inflammation and Immunity, Brigham and Women's Hospital, Boston, MA, USA.
- 71 Department of Medicine, Harvard Medical School, Boston, MA, USA.
- 72 RNA Systems Biochemistry Laboratory, Pioneering Research Institute, RIKEN, Wako, Japan.
- 73 Department of Computational Biology and Medical Sciences, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Japan.
- 74 School of Biology and Environmental Science, University College Dublin, Dublin, Ireland.
- 75 Department of Molecular Physiology and Biological Physics, University of Virginia, Charlottesville, VA, USA.
- 76 Department of Biochemistry and Molecular Genetics, University of Virginia, Charlottesville, VA, USA.
- 77 Columbia University, New York, NY, USA.
- 78 Computer Science and Artificial Intelligence Laboratory, Massachusetts Institute of Technology, Cambridge, MA, USA.
- 79 Broad Institute of MIT and Harvard, Cambridge, MA, USA.
- 80 New York Structural Biology Center, New York, NY, USA.
- 81 Institute of Cytology & Genetics, Novosibirsk, Russia.
- 82 Computational Biology Branch, Division of Intramural Research, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.
- 83 RNA Therapeutics Institute, University of Massachusetts Chan Medical School, Worcester, MA, USA.
- 84 Faculty of Biology, Institute of Genetics and Biotechnology, University of Warsaw, Warsaw, Poland.
- 85 Institute of Protein Research, Russian Academy of Sciences, Pushchino, Russia.
- 86 Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia.
- 87 Institute for Cardiovascular Physiology, Goethe University Frankfurt, Frankfurt, Germany.
- 88 German Center for Cardiovascular Research (DZHK), Partner Site Rhein-Main, Frankfurt, Germany.
- 89 Cardio-Pulmonary Institute (CPI), Goethe University Frankfurt, Frankfurt, Germany.
- 90 RNA Molecular Biology, Université libre de Bruxelles, Gosselies, Belgium.
- 91 Fonds de la Recherche Scientifique (F.R.S./FNRS), Brussels, Belgium.
- 92 Department of Oncology-Pathology, Science for Life Laboratory, Karolinska Institutet, Stockholm, Sweden.
- 93 EIRNA Bio, Cork, Ireland.
- 94 Institute of Parasitology, Biology Centre, České Budějovice, Czech Republic.
- 95 Faculty of Science, University of South Bohemia, České Budějovice, Czech Republic.
- 96 Department of Genetics, Microbiology and Statistics, Universitat de Barcelona, Barcelona, Spain.
- 97 Erasmus MC Cancer Institute, University Medical Center Rotterdam, Department of Urology, Rotterdam, the Netherlands.
- 98 Department of Pharmaceutical Sciences, University of California, Irvine, Irvine, CA, USA.
- 99 Department of Biological Chemistry, University of California, Irvine, Irvine, CA, USA.
- 100 Chao Family Comprehensive Cancer Center, University of California, Irvine, Irvine, CA, USA.
- 101 Division of Biological Science, Graduate School of Science, Nagoya University, Nagoya, Japan.
- 102 Department of Biological Sciences, Carnegie Mellon University, Pittsburgh, PA, USA.
- 103 Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA, USA.
- 104 University Hospital RWTH Aachen, Aachen, Germany.
- 105 Biosciences Institute, Newcastle University, Newcastle upon Tyne, UK.
- 106 Faculty of Bioscience Engineering, Department of Data Analysis and Mathematical Modelling, Ghent University, Ghent, Belgium.
- 107 Instituto de Hortofruticultura Subtropical y Mediterránea La Mayora (IHSM-UMA-CSIC), Málaga, Spain.
- 108 Department of Human Biology, University of Haifa, Haifa, Israel.
- 109 Plant Pathology, Entomology & Microbiology Department, Iowa State University, Ames, Iowa, USA.
- 110 Department of Chemistry, Biochemistry and Pharmaceutical Sciences, University of Bern, Bern, Switzerland.
- 111 CEA, CNRS, Institute for Integrative Biology of the Cell (I2BC), Université Paris-Saclay, Gif-sur-Yvette, France.
- 112 Max Planck Institute of Biochemistry, Martinsried, Germany.
- 113 Department of Bioscience, TUM School of Natural Sciences, Garching, Germany.
- 114 Faculty of Natural Sciences, Department of Biochemistry, Comenius University Bratislava, Bratislava, Slovakia.
- 115 Laboratory for Hereditary Cancer, Division of Molecular Medicine, Ruđer Bošković Institute, Zagreb, Croatia.
- 116 Department of Biomedical Engineering, Johns Hopkins University, Baltimore, MD, USA.
- 117 Instituto Nacional de Saúde Doutor Ricardo Jorge, Lisboa, Portugal.
- 118 BioISI-Biosystems Integrative Sciences Institute, Faculty of Sciences, University of Lisboa, Lisboa, Portugal.
- 119 Cambridge Institute for Medical Research, Department of Clinical Biochemistry, University of Cambridge, Cambridge, UK.
- 120 Department of Biochemistry and Functional Genomics, Université de Sherbrooke, Sherbrooke, Quebec, Canada.
- 121 Centre de Recherche du Centre Hospitalier Universitaire de Sherbrooke (CRCHUS), Sherbrooke, Quebec, Canada.
- 122 Salk Institute, La Jolla, CA, USA.
- 123 University of California, San Diego, La Jolla, CA, USA.
- 124 Center for Computational Biology, Johns Hopkins University, Baltimore, MD, USA.
- 125 School of Mathematical and Statistical Sciences, University of Galway, Galway, Ireland.
- 126 Rutgers University, Piscataway, NJ, USA.
- 127 School of Human Sciences, University of Western Australia, Perth, Western Australia, Australia.
- 128 Department of Chemistry, Yale University, New Haven, CT, USA.
- 129 Department of Biochemistry, McGill University, Montréal, Quebec, Canada.
- 130 Rosalind and Morris Goodman Cancer Research Centre, McGill University, Montréal, Quebec, Canada.
- 131 Department of Biochemistry and Molecular Biology, Colorado State University, Fort Collins, CO, USA.
- 132 Laboratory of RNA Biology, Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland.
- 133 Institute of Molecular and Cell Biology, University of Tartu, Tartu, Estonia.
- 134 Department of Molecular Biology, Institute of Biological Sciences, Maria Curie-Skłodowska University, Lublin, Poland.
- 135 Lady Davis Institute, Gerald Bronfman Department of Oncology, Division of Experimental Medicine, McGill University, Montréal, Quebec, Canada.
- 136 Department of Biomedical Engineering, Tel-Aviv University, Tel Aviv, Israel.
- 137 Department of Immunology and Regenerative Biology, Weizmann Institute of Science, Rehovot, Israel.
- 138 Laboratory of Regulation of Gene Expression, Institute of Microbiology of the Czech Academy of Sciences, Prague, Czech Republic.
- 139 iRIP Unit, Laboratory of Microbiology, Department of Biochemistry and Microbiology, Ghent University, Ghent, Belgium.
- 140 Institute of Biophysics CNR, Trento, Italy.
- 141 Department of Biology, New York University, New York, NY, USA.
- 142 School of Biological Sciences, University of Edinburgh, Edinburgh, UK.
- 143 Whitehead Institute, Cambridge, MA, USA.
- 144 Department of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA.
- 145 Howard Hughes Medical Institute, Chevy Chase, MD, USA.
- 146 Université de Strasbourg, Institut de Biologie Moléculaire et Cellulaire, Architecture et Réactivité de l'ARN, CNRS UPR9002, Strasbourg, France.
- 147 Engineering Research Center of Clinical Functional Materials and Diagnosis & Treatment Devices of Zhejiang Province, Wenzhou Institute, University of Chinese Academy of Sciences, Wenzhou, China.
- 148 Big Data Institute, University of Oxford, Oxford, UK.
- 149 Centre for Human Genetics, University of Oxford, Oxford, UK.
- 150 State Key Laboratory of Ophthalmology, Zhongshan Ophthalmic Center, Sun Yat-sen University, Guangzhou, China.
- 151 Cellular Biology Section, Laboratory of Viral Diseases, Division of Intramural Research, National Institute of Allergy and Infectious Diseases, Bethesda, MD, USA.
- 152 Department of Biochemistry and Molecular Biology, National Cheng Kung University, Tainan, Taiwan.
- 153 Institute of Basic Medical Sciences, College of Medicine, National Cheng Kung University, Tainan, Taiwan.
- 154 Life Science Research Centre, Faculty of Science, University of Ostrava, Ostrava, Czech Republic.
- 155 Department of Structural and Computational Biology, Max Perutz Labs, University of Vienna, Vienna, Austria.
- 156 Department of Biosciences, University of Oslo, Oslo, Norway. eivind.valen@ibv.uio.no.
- 157 Computational Biology Unit, Department of Informatics, University of Bergen, Bergen, Norway. eivind.valen@ibv.uio.no.
- 158 School of Biochemistry and Cell Biology, University College Cork, Cork, Ireland. p.baranov@ucc.ie.
- PMID: 40890551
- DOI: 10.1038/s41592-025-02810-3
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Conflict of interest statement
Competing interests: A.-R.C. is on the scientific advisory board of ProFound Therapeutics. G.L. and P.V.B. are co-founders and shareholders of Eirnabio Ltd. The remaining authors declare no competing interests.