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Thomas A. Hopf
Thomas A. Hopf
Scientific Consultant
Verified email at thomashopf.com
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
12282011
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
10432013
Protein structure prediction from sequence variation
DS Marks, TA Hopf, C Sander
Nature biotechnology 30 (11), 1072-1080, 2012
7012012
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
5982017
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
5962019
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
5902012
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
5272014
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
2492018
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
2122019
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, 1-6, 2014
1912014
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
1832020
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
1502016
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), 6077, 2015
1392015
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
1292018
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
872015
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
732019
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, 1-10, 2013
592013
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
382015
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
332015
PDBe-KB: collaboratively defining the biological context of structural data
Nucleic acids research 50 (D1), D534-D542, 2022
322022
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