Publications
Journal Article (120)
1.
Journal Article
22, 32 (2024)
Exosomes in skin photoaging: biological functions and therapeutic opportunity. Cell Communication and Signaling 2.
Journal Article
52 (D1), pp. D426 - D433 (2024)
DescribePROT in 2023: more, higher-quality and experimental annotations and improved data download options. Nucleic Acids Research 3.
Journal Article
Interfacial residues in protein–protein complexes are in the eyes of the beholder. Proteins: Structure, Function, and Bioinformatics (2023)
4.
Journal Article
5 (2), lqad057 (2023)
Cooperativity boosts affinity and specificity of proteins with multiple RNA-binding domains. NAR: genomics and bioinformatics 5.
Journal Article
Fast and accurate protein structure search with Foldseek. Nature Biotechnology (2023)
6.
Journal Article
78 (5), pp. 1148 - 1168 (2023)
Protease allergens as initiators–regulators of allergic inflammation. Allergy: European Journal of Allergy and Clinical Immunology 7.
Journal Article
5 (1), lqad007 (2023)
RNA sequencing indicates widespread conservation of circadian clocks in marine zooplankton. NAR: genomics and bioinformatics 8.
Journal Article
19 (6), pp. 679 - 682 (2022)
ColabFold: making protein folding accessible to all. Nature Methods 9.
Journal Article
8 (15), eabj8633 (2022)
Cln5 represents a new type of cysteine-basedS-depalmitoylase linked to neurodegeneration. Science Advances 10.
Journal Article
18 (2), e9816 (2022)
Large-scale analysis of Drosophila core promoter function using synthetic promoters. Molecular Systems Biology 11.
Journal Article
37 (19), pp. 3364 - 3366 (2021)
SpacePHARER: sensitive identification of phages from CRISPR spacers in prokaryotic hosts. Bioinformatics 12.
Journal Article
37 (18), pp. 3029 - 3031 (2021)
Fast and sensitive taxonomic assignment to metagenomic contigs. Bioinformatics 13.
Journal Article
37, pp. i308 - i316 (2021)
Thermodynamic modeling reveals widespread multivalent binding by RNA-binding proteins. Bioinformatics 14.
Journal Article
37 (Suppl. 1), pp. i308 - i316 (2021)
Thermodynamic modeling reveals widespread multivalent binding by RNA-binding proteins. Bioinformatics 15.
Journal Article
368 (12), fnab067 (2021)
Going to extremes: A metagenomic journey into the dark matter of life. FEMS Microbiology Letters 16.
Journal Article
22, 142 (2021)
Tejaas: reverse regression increases power for detecting trans-eQTLs. Genome Biology 17.
Journal Article
3 (2), lquab026 (2021)
Bayesian Markov models improve the prediction of binding motifs beyond first order. NAR: Genomics and Bioinformatics 18.
Journal Article
10, e65381 (2021)
Evidence for additive and synergistic action of mammalian enhancers during cell fate determination. eLife 19.
Journal Article
49 (D1), pp. D298 - D308 (2021)
DescribePROT: database of amino acid-level protein structure and function predictions. Nucleic Acids Research 20.
Journal Article
72 (1), e108 (2020)
Protein sequence analysis using the MPI Bioinformatics Toolkit. Current Protocols in Bioinformatics 21.
Journal Article
79 (6), p. 1066 (2020)
A high-throughput screen for transcription activation domains reveals their sequence features and permits prediction by deep learning (Correction). Molecular Cell 22.
Journal Article
78 (5), pp. 890 - 902.e6 (2020)
A high-throughput screen for transcription activation domains reveals their sequence features and permits prediction by deep learning. Molecular Cell 23.
Journal Article
8, 48 (2020)
MetaEuk—sensitive, high-throughput gene discovery, and annotation for large-scale eukaryotic metagenomics. Microbiome 24.
Journal Article
30 (1), pp. 4 - 14 (2020)
Mechanisms for active regulation of biomolecular condensates. Trends in Cell Biology 25.
Journal Article
47 (17), pp. 8961 - 8974 (2019)
Reconstructing complex lineage trees from scRNA-seq data using MERLoT. Nucleic Acids Research 26.
Journal Article
35 (18), pp. 3517 - 3519 (2019)
PROSSTT: Probabilistic simulation of single-cell RNA-seq data for complex differentiation processes. Bioinformatics 27.
Journal Article
20 (1), 473 (2019)
HH-suite3 for fast remote homology detection and deep protein annotation. BMC Bioinformatics 28.
Journal Article
35 (16), pp. 2856 - 2858 (2019)
MMseqs2 desktop and local web server app for fast, interactive sequence searches. Bioinformatics 29.
Journal Article
10 (1), 2909 (2019)
Lysine/RNA-interactions drive and regulate biomolecular condensation. Nature Communications 30.
Journal Article
16, pp. 603 - 606 (2019)
Protein-level assembly increases protein sequence recovery from metagenomic samples manyfold. Nature Methods 31.
Journal Article
8, e47040 (2019)
Transcriptome maps of general eukaryotic RNA degradation factors. eLife 32.
Journal Article
14 (12), e1007856 (2018)
Bayesian multiple logistic regression for case-control GWAS. PLoS Genetics 33.
Journal Article
14 (11), e1006526 (2018)
Synthetic protein alignments by CCMgen quantify noise in residue-residue contact prediction. PLoS Computational Biology 34.
Journal Article
430 (15), pp. 2237 - 2243 (2018)
A completely reimplemented MPI Bioinformatics Toolkit with a new HHpred server at its core. Journal of Molecular Biology 35.
Journal Article
8, 9938 (2018)
An analysis and evaluation of the WeFold collaborative for protein structure prediction and its pipelines in CASP11 and CASP12. Scientific Reports 36.
Journal Article
46 (W1), pp. W215 - W220 (2018)
The BaMM web server for de-novo motif discovery and regulatory sequence analysis. Nucleic Acids Research 37.
Journal Article
9, 2542 (2018)
Clustering huge protein sequence sets in linear time. Nature Communications 38.
Journal Article
35 (11), pp. 1026 - 1028 (2017)
MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets. Nature Biotechnology 39.
Journal Article
33 (19), pp. 3113 - 3114 (2017)
WIsH: Who is the host? Predicting prokaryotic hosts from metagenomic phage contigs. Bioinformatics 40.
Journal Article
6, e25637 (2017)
RNA-dependent chromatin association of transcription elongation factors and Pol II CTD kinases. eLife 41.
Journal Article
66 (1), pp. 38 - 49 (2017)
Genome-wide analysis of RNA polymerase II termination at protein-coding genes. Molecular Cell 42.
Journal Article
355 (6322), pp. 248 - 249 (2017)
Big-data approaches to protein structure prediction. Science 43.
Journal Article
45 (D1), pp. D170 - D176 (2017)
Uniclust databases of clustered and deeply annotated protein sequences and alignments. Nucleic Acids Research 44.
Journal Article
44 (13), pp. 6055 - 6069 (2016)
Bayesian Markov models consistently outperform PWMs at predicting motifs in nucleotide sequences. Nucleic Acids Research 45.
Journal Article
44 (W1), pp. W410 - W415 (2016)
The MPI bioinformatics Toolkit as an integrative platform for advanced protein sequence and structure analysis. Nucleic Acids Research 46.
Journal Article
32 (9), pp. 1323 - 1330 (2016)
MMseqs software suite for fast and deep clustering and searching of large protein sequence sets. Bioinformatics 47.
Journal Article
61 (2), pp. 247 - 259 (2016)
Modulations of DNA contacts by linker histones and post-translational modifications determine the mobility and modifiability of nucleosomal H3 tails. Molecular Cell 48.
Journal Article
4, e09410 (2015)
A vocabulary of ancient peptides at the origin of folded proteins. eLife 49.
Journal Article
11 (10), e1004343 (2015)
Automatic prediction of protein 3D Structures by probabilistic multi-template homology modeling. PLoS Computational Biology 50.
Journal Article
83 (10), pp. 1849 - 1858 (2015)
Structure of Ctk3, a subunit of the RNA polymerase II CTD kinase complex, reveals a non-canonical CTD-interacting domain fold. Proteins: Structure, Function, and Bioinformatics