Thomas A. Hopf

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Debora MarksSystems Biology, Harvard Medical SchoolVerified email at hms.harvard.edu
Chris SanderDana-Farber Cancer Institute, Harvard Medical School, Broad Institute, Memorial Sloan KetteringVerified email at sanderlab.org
Charlotta ScharfeGraduate Student in Bioinformatics, University of TubingenVerified email at informatik.uni-tuebingen.de
Burkhard RostProfessor of Computer Science & Computational Biology & Bioinformatics, TUM, MunichVerified email at tum.de
Anna G. GreenDepartment of Biomedical Informatics, Harvard Medical SchoolVerified email at hms.harvard.edu
John IngrahamGenerate Biomedicines, IncVerified email at csail.mit.edu
Andrea PagnaniProfessor at DISAT - Politecnico di Torino, and PI at the IIGMVerified email at polito.it
Riccardo Zecchinaprofessor, theoretical physics, Bocconi UniversityVerified email at unibocconi.it
Oliver KohlbacherProfessor for Applied Bioinformatics, University of TübingenVerified email at uni-tuebingen.de
Frank PoelwijkGenerate Biomedicines LLCVerified email at generatebiomedicines.com
Michael Springerharvard medical schoolVerified email at hms.harvard.edu
Agnes Toth-PetroczyMPI of Molecular Cell Biology and Genetics and Center for Systems Biology DresdenVerified email at mpi-cbg.de
Benjamin SchubertGroup Leader, ICB@Helmholtz Center MunichVerified email at helmholtz-muenchen.de
Matúš KalašComputational Biology Unit, Department of Informatics, University of BergenVerified email at uib.no
Richard BentonUniversity of LausanneVerified email at unil.ch
Gaetano T Montelione, Constellation...Rensselaer Polytechnic InstituteVerified email at rpi.edu
Maximilian HechtAmazon.com Inc.Verified email at rostlab.org
Peter HönigschmidDepartment of Genome-Oriented Bioinformatics, TUM, WeihenstephanVerified email at wzw.tum.de
Stefan SeemayerBioinformatician at BASF SEVerified email at seemayer.de
Denis KrompassSiemens AGVerified email at siemens.com

Thomas A. Hopf

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Verified email at thomashopf.com

Computational Biology


Title Sort by citations Sort by year Sort by title	Cited by Cited by	Year
Protein 3D structure computed from evolutionary sequence variation DS Marks, LJ Colwell, R Sheridan, TA Hopf, A Pagnani, R Zecchina, ... PloS one 6 (12), e28766, 2011	1018	2011
A large-scale evaluation of computational protein function prediction P Radivojac, WT Clark, TR Oron, AM Schnoes, T Wittkop, A Sokolov, ... Nature methods 10 (3), 221-227, 2013	872	2013
Protein structure prediction from sequence variation DS Marks, TA Hopf, C Sander Nature biotechnology 30 (11), 1072-1080, 2012	608	2012
Three-dimensional structures of membrane proteins from genomic sequencing TA Hopf, LJ Colwell, R Sheridan, B Rost, C Sander, DS Marks Cell 149 (7), 1607-1621, 2012	533	2012
Sequence co-evolution gives 3D contacts and structures of protein complexes TA Hopf, CPI Schärfe, JP Rodrigues, AG Green, O Kohlbacher, C Sander, ... elife 3, e03430, 2014	443	2014
Mutation effects predicted from sequence co-variation TA Hopf, JB Ingraham, FJ Poelwijk, CPI Schärfe, M Springer, C Sander, ... Nature biotechnology 35 (2), 128-135, 2017	379	2017
A deep proteome and transcriptome abundance atlas of 29 healthy human tissues D Wang, B Eraslan, T Wieland, B Hallström, T Hopf, DP Zolg, J Zecha, ... Molecular systems biology 15 (2), e8503, 2019	321	2019
FreeContact: fast and free software for protein contact prediction from residue co-evolution L Kaján, TA Hopf, M Kalaš, DS Marks, B Rost BMC bioinformatics 15 (1), 1-6, 2014	166	2014
A systematic p53 mutation library links differential functional impact to cancer mutation pattern and evolutionary conservation E Kotler, O Shani, G Goldfeld, M Lotan-Pompan, O Tarcic, A Gershoni, ... Molecular cell 71 (1), 178-190. e8, 2018	150	2018
Structured states of disordered proteins from genomic sequences A Toth-Petroczy, P Palmedo, J Ingraham, TA Hopf, B Berger, C Sander, ... Cell 167 (1), 158-170. e12, 2016	122	2016
Amino acid coevolution reveals three-dimensional structure and functional domains of insect odorant receptors TA Hopf, S Morinaga, S Ihara, K Touhara, DS Marks, R Benton Nature communications 6 (1), 1-7, 2015	110	2015
The EVcouplings Python framework for coevolutionary sequence analysis TA Hopf, AG Green, B Schubert, S Mersmann, CPI Schärfe, JB Ingraham, ... Bioinformatics 35 (9), 1582-1584, 2019	100	2019
Structure of the peptidoglycan polymerase RodA resolved by evolutionary coupling analysis M Sjodt, K Brock, G Dobihal, PDA Rohs, AG Green, TA Hopf, AJ Meeske, ... Nature 556 (7699), 118-121, 2018	93	2018
Protein structure determination by combining sparse NMR data with evolutionary couplings Y Tang, YJ Huang, TA Hopf, C Sander, DS Marks, GT Montelione Nature methods 12 (8), 751-754, 2015	76	2015
Meltome atlas—thermal proteome stability across the tree of life A Jarzab, N Kurzawa, T Hopf, M Moerch, J Zecha, N Leijten, Y Bian, ... Nature methods 17 (5), 495-503, 2020	73	2020
Homology-based inference sets the bar high for protein function prediction T Hamp, R Kassner, S Seemayer, E Vicedo, C Schaefer, D Achten, F Auer, ... BMC bioinformatics 14 (3), 1-10, 2013	55	2013
Quantification and discovery of sequence determinants of protein‐per‐mRNA amount in 29 human tissues B Eraslan, D Wang, M Gusic, H Prokisch, BM Hallström, M Uhlén, ... Molecular systems biology 15 (2), e8513, 2019	46	2019
Quantification of the effect of mutations using a global probability model of natural sequence variation TA Hopf, JB Ingraham, FJ Poelwijk, M Springer, C Sander, DS Marks arXiv preprint arXiv:1510.04612, 2015	32	2015
Evfold. org: Evolutionary couplings and protein 3d structure prediction R Sheridan, RJ Fieldhouse, S Hayat, Y Sun, Y Antipin, L Yang, T Hopf, ... biorxiv, 021022, 2015	28	2015
Population-specific design of de-immunized protein biotherapeutics B Schubert, C Schärfe, P Dönnes, T Hopf, D Marks, O Kohlbacher PLoS computational biology 14 (3), e1005983, 2018	15	2018

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