Critical assessment of protein intrinsic disorder prediction
Marco Necci
(1)
,
Damiano Piovesan
(1)
,
Silvio C E Tosatto
(1)
,
Md Tamjidul Hoque
,
Ian Walsh
,
Sumaiya Iqbal
,
Michele Vendruscolo
,
Pietro Sormanni
,
Chen Wang
,
Daniele Raimondi
,
Ronesh Sharma
,
Yaoqi Zhou
,
Thomas Litfin
,
Oxana Valerianovna Galzitskaya
,
Michail Yu. Lobanov
,
Wim Vranken
,
Björn Wallner
,
Claudio Mirabello
,
Nawar Malhis
,
Zsuzsanna Dosztányi
,
Gábor Erdős
,
Bálint Mészáros
,
Jianzhao Gao
,
Kui Wang
,
Gang Hu
,
Zhonghua Wu
,
Alok Sharma
,
Jack Hanson
,
Kuldip Paliwal
,
Isabelle Callebaut
(2)
,
Tristan Bitard-Feildel
,
Gabriele Orlando
,
Zhenling Peng
,
Jinbo Xu
,
Sheng Wang
,
David T. Jones
,
Domenico Cozzetto
,
Fanchi Meng
,
Jing Yan
,
Jörg Gsponer
,
Jianlin Cheng
,
Tianqi Wu
,
Lukasz Kurgan
,
Vasilis J. Promponas
,
Stella Tamana
,
Cristina Marino-Buslje
,
Elizabeth Martínez-Pérez
,
Anastasia Chasapi
,
Christos Ouzounis
,
A. Keith Dunker
,
Andrey V. Kajava
,
Jeremy Y. Leclercq
,
Burcu Aykac-Fas
,
Matteo Lambrughi
,
Emiliano Maiani
,
Elena Papaleo
,
Lucia Beatriz Chemes
,
Lucía Álvarez
,
Nicolás S. González-Foutel
,
Valentin Iglesias
,
Jordi Pujols
,
Salvador Ventura
,
Nicolás Palopoli
,
Guillermo Ignacio Benítez
,
Gustavo Parisi
,
Claudio Bassot
,
Arne Elofsson
,
Sudha Govindarajan
,
John Lamb
,
Marco Salvatore
,
András Hatos
,
Alexander Miguel Monzon
,
Martina Bevilacqua
,
Ivan Mičetić
,
Giovanni Minervini
,
Lisanna Paladin
,
Federica Quaglia
,
Emanuela Leonardi
,
Norman Davey
,
Tamas Horvath
,
Orsolya Panna Kovacs
,
Nikoletta Murvai
,
Rita Pancsa
,
Eva Schad
,
Beata Szabo
,
Agnes Tantos
,
Sandra Macedo-Ribeiro
,
Jose Antonio Manso
,
Pedro José Barbosa Pereira
,
Radoslav Davidović
,
Nevena Veljkovic
,
Borbála Hajdu-Soltész
,
Mátyás Pajkos
,
Tamás Szaniszló
,
Mainak Guharoy
,
Tamas Lazar
,
Mauricio Macossay-Castillo
,
Peter Tompa
Marco Necci
- Function : Author
- PersonId : 1092155
Damiano Piovesan
- Function : Author
- PersonId : 791665
- ORCID : 0000-0001-8210-2390
Md Tamjidul Hoque
- Function : Author
Ian Walsh
- Function : Author
Sumaiya Iqbal
- Function : Author
Michele Vendruscolo
- Function : Author
Pietro Sormanni
- Function : Author
Chen Wang
- Function : Author
- PersonId : 758852
- ORCID : 0000-0001-9127-0054
Daniele Raimondi
- Function : Author
Ronesh Sharma
- Function : Author
Yaoqi Zhou
- Function : Author
Thomas Litfin
- Function : Author
Oxana Valerianovna Galzitskaya
- Function : Author
Michail Yu. Lobanov
- Function : Author
Wim Vranken
- Function : Author
- PersonId : 792619
- ORCID : 0000-0001-7470-4324
- IdRef : 200698184
Björn Wallner
- Function : Author
Claudio Mirabello
- Function : Author
Nawar Malhis
- Function : Author
Zsuzsanna Dosztányi
- Function : Author
- PersonId : 792610
- ORCID : 0000-0002-3624-5937
Gábor Erdős
- Function : Author
- PersonId : 810186
- ORCID : 0000-0001-6218-5192
Bálint Mészáros
- Function : Author
- PersonId : 799218
- ORCID : 0000-0003-0919-4449
Jianzhao Gao
- Function : Author
Kui Wang
- Function : Author
Gang Hu
- Function : Author
Zhonghua Wu
- Function : Author
Alok Sharma
- Function : Author
Jack Hanson
- Function : Author
Kuldip Paliwal
- Function : Author
Tristan Bitard-Feildel
- Function : Author
Gabriele Orlando
- Function : Author
Zhenling Peng
- Function : Author
Jinbo Xu
- Function : Author
Sheng Wang
- Function : Author
David T. Jones
- Function : Author
Domenico Cozzetto
- Function : Author
Fanchi Meng
- Function : Author
Jing Yan
- Function : Author
Jörg Gsponer
- Function : Author
Jianlin Cheng
- Function : Author
Tianqi Wu
- Function : Author
Lukasz Kurgan
- Function : Author
Vasilis J. Promponas
- Function : Author
Stella Tamana
- Function : Author
Cristina Marino-Buslje
- Function : Author
- PersonId : 799216
- ORCID : 0000-0002-6564-1920
Elizabeth Martínez-Pérez
- Function : Author
- PersonId : 799217
- ORCID : 0000-0003-4411-976X
Anastasia Chasapi
- Function : Author
- PersonId : 799214
- ORCID : 0000-0003-1986-5007
Christos Ouzounis
- Function : Author
A. Keith Dunker
- Function : Author
Andrey V. Kajava
- Function : Author
Jeremy Y. Leclercq
- Function : Author
Burcu Aykac-Fas
- Function : Author
- PersonId : 1300094
- IdHAL : burcu-aykac-fas
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Matteo Lambrughi
- Function : Author
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Emiliano Maiani
- Function : Author
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Elena Papaleo
- Function : Author
- PersonId : 799221
- ORCID : 0000-0002-7376-5894
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Lucia Beatriz Chemes
- Function : Author
Lucía Álvarez
- Function : Author
Nicolás S. González-Foutel
- Function : Author
Valentin Iglesias
- Function : Author
Jordi Pujols
- Function : Author
- PersonId : 792617
- ORCID : 0000-0001-9424-5866
Salvador Ventura
- Function : Author
- PersonId : 768901
- ORCID : 0000-0002-9652-6351
- IdRef : 157054586
Nicolás Palopoli
- Function : Author
- PersonId : 810187
- ORCID : 0000-0001-7925-6436
Guillermo Ignacio Benítez
- Function : Author
Gustavo Parisi
- Function : Author
- PersonId : 794519
- ORCID : 0000-0001-7444-1624
Claudio Bassot
- Function : Author
- PersonId : 799213
- ORCID : 0000-0001-7161-9028
Arne Elofsson
- Function : Author
- PersonId : 792611
- ORCID : 0000-0002-7115-9751
- IdRef : 242123236
Sudha Govindarajan
- Function : Author
John Lamb
- Function : Author
Marco Salvatore
- Function : Author
András Hatos
- Function : Author
- PersonId : 792612
- ORCID : 0000-0001-9224-9820
Alexander Miguel Monzon
- Function : Author
Martina Bevilacqua
- Function : Author
Ivan Mičetić
- Function : Author
Giovanni Minervini
- Function : Author
- PersonId : 792616
- ORCID : 0000-0001-7013-5785
Lisanna Paladin
- Function : Author
Federica Quaglia
- Function : Author
- PersonId : 792608
- ORCID : 0000-0002-0341-4888
Emanuela Leonardi
- Function : Author
- PersonId : 792613
- ORCID : 0000-0001-8486-8461
Norman Davey
- Function : Author
Tamas Horvath
- Function : Author
Orsolya Panna Kovacs
- Function : Author
Nikoletta Murvai
- Function : Author
Rita Pancsa
- Function : Author
- PersonId : 799220
- ORCID : 0000-0003-0849-9312
Eva Schad
- Function : Author
- PersonId : 792618
- ORCID : 0000-0002-3006-2910
Beata Szabo
- Function : Author
Agnes Tantos
- Function : Author
Sandra Macedo-Ribeiro
- Function : Author
- PersonId : 792615
- ORCID : 0000-0002-7698-1170
Jose Antonio Manso
- Function : Author
Pedro José Barbosa Pereira
- Function : Author
Radoslav Davidović
- Function : Author
- PersonId : 792609
- ORCID : 0000-0002-6097-6203
Nevena Veljkovic
- Function : Author
- PersonId : 798803
- ORCID : 0000-0001-6562-5800
Borbála Hajdu-Soltész
- Function : Author
Mátyás Pajkos
- Function : Author
- PersonId : 799219
- ORCID : 0000-0001-5791-9825
Tamás Szaniszló
- Function : Author
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Mainak Guharoy
- Function : Author
Tamas Lazar
- Function : Author
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Mauricio Macossay-Castillo
- Function : Author
Peter Tompa
- Function : Author
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Abstract
Intrinsically disordered proteins, defying the traditional protein structure–function paradigm, are a challenge to study experimentally. Because a large part of our knowledge rests on computational predictions, it is crucial that their accuracy is high. The Critical Assessment of protein Intrinsic Disorder prediction (CAID) experiment was established as a community-based blind test to determine the state of the art in prediction of intrinsically disordered regions and the subset of residues involved in binding. A total of 43 methods were evaluated on a dataset of 646 proteins from DisProt. The best methods use deep learning techniques and notably outperform physicochemical methods. The top disorder predictor has F max = 0.483 on the full dataset and F max = 0.792 following filtering out of bona fide structured regions. Disordered binding regions remain hard to predict, with F max = 0.231. Interestingly, computing times among methods can vary by up to four orders of magnitude.
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