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Fidel Ramirez
Fidel Ramirez
Verified email at boehringer-ingelheim.com
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Cited by
Year
deepTools2: a next generation web server for deep-sequencing data analysis
F Ramírez, DP Ryan, B Grüning, V Bhardwaj, F Kilpert, AS Richter, ...
Nucleic acids research 44 (Web Server issue), W160, 2016
55942016
deepTools: a flexible platform for exploring deep-sequencing data
F Ramírez, F Dündar, S Diehl, BA Grüning, T Manke
Nucleic acids research 42 (W1), W187-W191, 2014
26302014
Computing topological parameters of biological networks
Y Assenov, F Ramírez, SE Schelhorn, T Lengauer, M Albrecht
Bioinformatics 24 (2), 282-284, 2008
18252008
GOATOOLS: A Python library for Gene Ontology analyses
DV Klopfenstein, L Zhang, BS Pedersen, F Ramírez, A Warwick Vesztrocy, ...
Scientific reports 8 (1), 1-17, 2018
8222018
High-resolution TADs reveal DNA sequences underlying genome organization in flies
F Ramírez, V Bhardwaj, L Arrigoni, KC Lam, BA Grüning, J Villaveces, ...
Nature communications 9 (1), 189, 2018
7152018
Recruitment and activation of a lipid kinase by hepatitis C virus NS5A is essential for integrity of the membranous replication compartment
S Reiss, I Rebhan, P Backes, I Romero-Brey, H Erfle, P Matula, L Kaderali, ...
Cell host & microbe 9 (1), 32-45, 2011
5532011
Suv39h-dependent H3K9me3 marks intact retrotransposons and silences LINE elements in mouse embryonic stem cells
A Bulut-Karslioglu, A Inti, F Ramirez, M Barenboim, M Onishi-Seebacher, ...
Molecular cell 55 (2), 277-290, 2014
3352014
pyGenomeTracks: reproducible plots for multivariate genomic datasets
L Lopez-Delisle, L Rabbani, J Wolff, V Bhardwaj, R Backofen, B Grüning, ...
Bioinformatics 37 (3), 422-423, 2021
2752021
The implications of alternative splicing in the ENCODE protein complement
ML Tress, PL Martelli, A Frankish, GA Reeves, JJ Wesselink, C Yeats, ...
Proceedings of the National Academy of Sciences 104 (13), 5495-5500, 2007
2472007
Community-driven data analysis training for biology
B Batut, S Hiltemann, A Bagnacani, D Baker, V Bhardwaj, C Blank, ...
Cell systems 6 (6), 752-758. e1, 2018
1822018
Galaxy HiCExplorer: a web server for reproducible Hi-C data analysis, quality control and visualization
J Wolff, V Bhardwaj, S Nothjunge, G Richard, G Renschler, R Gilsbach, ...
Nucleic acids research 46 (W1), W11-W16, 2018
1812018
The genomic landscape of the somatic linker histone subtypes H1. 1 to H1. 5 in human cells
A Izzo, K Kamieniarz-Gdula, F Ramírez, N Noureen, J Kind, T Manke, ...
Cell reports 3 (6), 2142-2154, 2013
1412013
Computational analysis of human protein interaction networks
F Ramirez, A Schlicker, Y Assenov, T Lengauer, M Albrecht
Proteomics 7 (15), 2541-2552, 2007
912007
MOF-associated complexes ensure stem cell identity and Xist repression
T Chelmicki, F Dündar, MJ Turley, T Khanam, T Aktas, F Ramírez, ...
Elife 3, e02024, 2014
902014
High-affinity sites form an interaction network to facilitate spreading of the MSL complex across the X chromosome in Drosophila
F Ramirez, T Lingg, S Toscano, KC Lam, P Georgiev, HR Chung, ...
Molecular cell 60 (1), 146-162, 2015
882015
.(2016) deepTools2: a next generation web server for deepsequencing data analysis
F Ramírez, DP Ryan, B Grüning, V Bhardwaj, F Kilpert, AS Richter
Nucleic Acids Res 44, W160-W165, 0
86
GOATOOLS: tools for gene ontology
H Tang, D Klopfenstein, B Pedersen, P Flick, K Sato, F Ramirez, J Yunes, ...
Zenodo 10 (10872), 10-1038, 2015
812015
A comprehensive analysis of 195 DNA methylomes reveals shared and cell-specific features of partially methylated domains
A Salhab, K Nordström, G Gasparoni, K Kattler, P Ebert, F Ramirez, ...
Genome biology 19, 1-13, 2018
802018
The scverse project provides a computational ecosystem for single-cell omics data analysis
I Virshup, D Bredikhin, L Heumos, G Palla, G Sturm, A Gayoso, I Kats, ...
Nature biotechnology 41 (5), 604-606, 2023
762023
Functional evaluation of domain–domain interactions and human protein interaction networks
A Schlicker, C Huthmacher, F Ramírez, T Lengauer, M Albrecht
Bioinformatics 23 (7), 859-865, 2007
512007
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