Peer Bork

1. Interactive Tree Of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation
   2021/04/12 by Ivica Letunić, Ivica Letunic, Peer Bork · 281 citations
   Agricultural and Biological Sciences · Biochemistry, Genetics and Molecular Biology · Earth and Planetary Sciences · #Evolution and Paleontology Studies #Genomics and Phylogenetic Studies #Plant and animal studies
2. eggNOG-mapper v2: Functional Annotation, Orthology Assignments, and Domain Prediction at the Metagenomic Scale
   2021/09/30 by Carlos P. Cantalapiedra, Ana Hernández-Plaza, Ivica Letunić +2 · 230 citations
   Biochemistry, Genetics and Molecular Biology · #Bioinformatics and Genomic Networks #Genomics and Phylogenetic Studies #Microbial Metabolic Engineering and Bioproduction
3. Interactive Tree of Life (iTOL) v6: recent updates to the phylogenetic tree display and annotation tool
   2024/04/13 by Ivica Letunic, Ivica Letunić, Peer Bork · 1 voice · 251 citations
   Biochemistry, Genetics and Molecular Biology · Environmental Science · #Environmental DNA in Biodiversity Studies #Genomics and Phylogenetic Studies #Species Distribution and Climate Change
4. The STRING database in 2023: protein–protein association networks and functional enrichment analyses for any sequenced genome of interest
   2022/11/12 by Damian Szklarczyk, Rebecca Kirsch, Mikaela Koutrouli +14 · 160 citations
   Biochemistry, Genetics and Molecular Biology · Computer Science · #Bioinformatics and Genomic Networks #Computational Drug Discovery Methods #Gene expression and cancer classification
5. eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses
   2018/11/12 by Jaime Huerta-Cepas, Damian Szklarczyk, Davide Heller +9 · 69 citations
6. InterPro in 2022
   2022/11/09 by Typhaine Paysan-Lafosse, Typhaine Paysan‐Lafosse, Matthias Blum +36 · 97 citations
   Biochemistry, Genetics and Molecular Biology · Materials Science · #Enzyme Structure and Function #Machine Learning in Bioinformatics #Protein Structure and Dynamics
7. The InterPro protein families and domains database: 20 years on
   2020/10/23 by Matthias Blum, Hsin-Yu Chang, Sara Chuguransky +30 · 68 citations
   Biochemistry, Genetics and Molecular Biology · Chemistry · Materials Science · #Advanced Proteomics Techniques and Applications #Enzyme Structure and Function #Genomics and Phylogenetic Studies
8. ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data
   2016/02/26 by Jaime Huerta-Cepas, François Serra, Peer Bork · 37 citations
9. The STRING database in 2021: customizable protein–protein networks, and functional characterization of user-uploaded gene/measurement sets
   2020/11/23 by Damian Szklarczyk, Annika L Gable, Katerina Nastou +9 · 46 citations
   Biochemistry, Genetics and Molecular Biology · Chemistry · #Bioinformatics and Genomic Networks #Gene expression and cancer classification #Advanced Proteomics Techniques and Applications
10. STRING v11: protein–protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets
    2018/11/22 by Damian Szklarczyk, Annika L Gable, David Lyon +9 · 32 citations
11. SMART: recent updates, new developments and status in 2020
    2020/10/06 by Ivica Letunić, Supriya Khedkar, Peer Bork · 31 citations
    Biochemistry, Genetics and Molecular Biology · #Genomics and Phylogenetic Studies #Machine Learning in Bioinformatics #vaccines and immunoinformatics approaches
12. Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper
    2017/04/29 by Jaime Huerta-Cepas, Kristoffer Forslund, Luis Pedro Coelho +4 · 12 citations
13. Drug Target Identification Using Side-Effect Similarity
    2008/07/10 by Mónica Campillos, Michael Kuhn, Anne‐Claude Gavin +2 · 1 voice · 4 citations
    Computer Science · Medicine · Pharmacology, Toxicology and Pharmaceutics · #Computational Drug Discovery Methods #Microbial Natural Products and Biosynthesis #Pharmacogenetics and Drug Metabolism
14. The DNA sequence of human chromosome 7
    2003/07/01 by LaDeana W. Hillier, Robert S. Fulton, Lucinda A. Fulton +130 · 3 citations
    Biochemistry, Genetics and Molecular Biology · Agricultural and Biological Sciences · #RNA and protein synthesis mechanisms #Genomics and Chromatin Dynamics #Chromosomal and Genetic Variations
15. Discovery of antimicrobial peptides in the global microbiome with machine learning
    2024/06/05 by Célio Dias Santos Júnior, Marcelo D. T. Torres, Yiqian Duan +14 · 1 voice · 8 citations
    Agricultural and Biological Sciences · Biochemistry, Genetics and Molecular Biology · Immunology and Microbiology · #Antimicrobial Peptides and Activities #Genomics and Phylogenetic Studies #Probiotics and Fermented Foods
16. Prediction of Potential GPI-modification Sites in Proprotein Sequences
    1999/09/01 by Birgit Eisenhaber, Peer Bork, Frank Eisenhaber · 3 citations
    Biochemistry, Genetics and Molecular Biology · Medicine · #RNA and protein synthesis mechanisms #Biochemical and Structural Characterization #Peptidase Inhibition and Analysis
17. A faecal microbiota signature with high specificity for pancreatic cancer
    2022/03/08 by Ece Kartal, Thomas Schmidt, Esther Molina‐Montes +33 · 1 voice · 3 citations
    Biochemistry, Genetics and Molecular Biology · Medicine · #Gut microbiota and health #Pancreatic and Hepatic Oncology Research #Pancreatitis Pathology and Treatment
18. Landscape of mobile genetic elements and their antibiotic resistance cargo in prokaryotic genomes
    2022/03/11 by Supriya Khedkar, Georgy Smyshlyaev, Ivica Letunić +9 · 1 voice · 3 citations
    Agricultural and Biological Sciences · Biochemistry, Genetics and Molecular Biology · Environmental Science · #Bacteriophages and microbial interactions #Genomics and Phylogenetic Studies #Plant Disease Resistance and Genetics
19. Emergence of community behaviors in the gut microbiota upon drug treatment
    2024/09/24 by Sarela García‐Santamarina, Michael Kuhn, Saravanan Devendran +10 · 1 voice · 4 citations
    Biochemistry, Genetics and Molecular Biology · Medicine · Neuroscience · #Clostridium difficile and Clostridium perfringens research #Gut microbiota and health #Tryptophan and brain disorders
20. Fecal microbial load is a major determinant of gut microbiome variation and a confounder for disease associations
    2024/11/13 by Suguru Nishijima, Evelina Stankevič, Oliver Aasmets +38 · 2 voices · 3 citations
    Biochemistry, Genetics and Molecular Biology · Medicine · #Clostridium difficile and Clostridium perfringens research #Gastrointestinal motility and disorders #Gut microbiota and health
21. In-cell discovery and characterization of a non-canonical bacterial protein translocation-folding complex
    2025/04/25 by Rasmus K. Jensen, Liang Xue, Federico Marotta +10 · 1 voice · 3 citations
    Biochemistry, Genetics and Molecular Biology · Environmental Science · #Bacterial Genetics and Biotechnology #RNA and protein synthesis mechanisms #Bacteriophages and microbial interactions
22. Refined Enterotyping Reveals Dysbiosis in Global Fecal Metagenomes
    2024/08/13 by M. Keller, Suguru Nishijima, Daniel Podlesny +32 · 2 voices · 1 citation
    Biochemistry, Genetics and Molecular Biology · Medicine · #Gut microbiota and health #Diet and metabolism studies #Nutritional Studies and Diet