|HIPPIE v2. 0: enhancing meaningfulness and reliability of protein–protein interaction networks|
G Alanis-Lobato, MA Andrade-Navarro, MH Schaefer
Nucleic acids research, gkw985, 2016
|HIPPIE: Integrating protein interaction networks with experiment based quality scores|
MH Schaefer, JF Fontaine, A Vinayagam, P Porras, EE Wanker, ...
PloS one 7 (2), e31826, 2012
|MedlineRanker: flexible ranking of biomedical literature|
JF Fontaine, A Barbosa-Silva, M Schaefer, MR Huska, EM Muro, ...
Nucleic acids research 37 (suppl 2), W141-W146, 2009
|Evolution and function of CAG/polyglutamine repeats in protein–protein interaction networks|
MH Schaefer, EE Wanker, MA Andrade-Navarro
Nucleic acids research 40 (10), 4273-4287, 2012
|Spatiotemporal proteomic profiling of Huntington’s disease inclusions reveals widespread loss of protein function|
F Hosp, S Gutiérrez-Ángel, MH Schaefer, J Cox, F Meissner, MS Hipp, ...
Cell reports 21 (8), 2291-2303, 2017
|Adding Protein Context to the Human Protein-Protein Interaction Network to Reveal Meaningful Interactions|
MH Schaefer, TJS Lopes, N Mah, JE Shoemaker, Y Matsuoka, ...
PLOS Computational Biology 9 (1), e1002860, 2013
|Negative selection in tumor genome evolution acts on essential cellular functions and the immunopeptidome|
L Zapata, O Pich, L Serrano, FA Kondrashov, S Ossowski, MH Schaefer
Genome biology 19 (1), 1-17, 2018
|Molecular Insights into Reprogramming-Initiation Events Mediated by the OSKM Gene Regulatory Network|
N Mah, Y Wang, MC Liao, A Prigione, J Jozefczuk, B Lichtner, K Wolfrum, ...
PloS one 6 (8), e24351, 2011
|Cell type-specific properties and environment shape tissue specificity of cancer genes|
MH Schaefer, L Serrano
Scientific reports 6 (1), 20707, 2016
|Correcting for the study bias associated with protein–protein interaction measurements reveals differences between protein degree distributions from different cancer types|
MH Schaefer, L Serrano, MA Andrade-Navarro
Frontiers in genetics 6, 260, 2015
|Tissue-specific subnetworks and characteristics of publicly available human protein interaction databases|
TJS Lopes, M Schaefer, J Shoemaker, Y Matsuoka, J Fontaine, ...
Bioinformatics 27 (17), 2414-2421, 2011
|Interactome mapping provides a network of neurodegenerative disease proteins and uncovers widespread protein aggregation in affected brains|
C Haenig, N Atias, AK Taylor, A Mazza, MH Schaefer, J Russ, ...
Cell reports 32 (7), 2020
|SynSysNet: integration of experimental data on synaptic protein–protein interactions with drug-target relations|
J von Eichborn, M Dunkel, BO Gohlke, SC Preissner, MF Hoffmann, ...
Nucleic Acids Research 41 (D1), D834-D840, 2013
|Translational efficiency across healthy and tumor tissues is proliferation‐related|
X Hernandez‐Alias, H Benisty, MH Schaefer, L Serrano
Molecular systems biology 16 (3), e9275, 2020
|Aggregation of polyQ‐extended proteins is promoted by interaction with their natural coiled‐coil partners|
S Petrakis, MH Schaefer, EE Wanker, MA Andrade‐Navarro
Bioessays 35 (6), 503-507, 2013
|The cis‐regulatory code of Hox function in Drosophila|
S Sorge, N Ha, M Polychronidou, J Friedrich, D Bezdan, P Kaspar, ...
The EMBO journal 31 (15), 3323-3333, 2012
|Tissue-specific DNA methylation loss during ageing and carcinogenesis is linked to chromosome structure, replication timing and cell division rates|
M Dmitrijeva, S Ossowski, L Serrano, MH Schaefer
Nucleic acids research 46 (14), 7022-7039, 2018
|Functional and genomic analyses of alpha-solenoid proteins|
D Fournier, GA Palidwor, S Shcherbinin, A Szengel, MH Schaefer, ...
PLoS One 8 (11), e79894, 2013
|Identification of Human Proteins That Modify Misfolding and Proteotoxicity of Pathogenic Ataxin-1|
S Petrakis, T Raskó, J Russ, RP Friedrich, M Stroedicke, SP Riechers, ...
PLoS Genetics 8 (8), e1002897, 2012
|A comprehensive view of the β-arrestinome|
P Crépieux, A Poupon, N Langonné-Gallay, E Reiter, J Delgado, ...
Frontiers in Endocrinology 8, 32, 2017