Damian Szklarczyk

Molecular Biology · 2010–2024

A researcher in the Science corpus: 20 papers; trusts 25 researchers and is trusted by 6 researchers here, as inferred from the citation graph.

Subfields

• Molecular Biology — 458 citations into it; #5,542 of 17,773 by trust here, #1,015 by citations
• Genetics — 83 citations into it
• Computational Theory and Mathematics — 71 citations into it
• Spectroscopy — 64 citations into it; #1,453 of 1,674 by trust here, #267 by citations
• Computational Biology & Bioinformatics — 60 citations into it
• Ecology — 28 citations into it
• Evaluation & Benchmarks — 12 citations into it

Whom Damian Szklarczyk trusts overall

Their strongest outbound trust, strongest first, inferred from their citations.

1. Minoru Kanehisa
2. Lars Juhl Jensen
3. Michael Kuhn
4. Peer Bork
5. Ivica Letunic
6. Jaime Huerta-Cepas
7. Andrea Franceschini
8. C. von Mering
9. Eugene V. Koonin
10. Yoav Benjamini

Who trusts Damian Szklarczyk overall

1. Ivica Letunic
2. Peer Bork
3. Jaime Huerta-Cepas
4. Marinka Zitnik
5. William L. Hamilton
6. Michael Kuhn
7. Weihua Hu
8. M. Larance
9. Sune Frankild
10. Yaqiu Wang

Papers from Damian Szklarczyk's perspective

Ordered by how strongly the researchers Damian Szklarczyk trusts endorse each paper. Same corpus, a different order for every researcher.

1. The Pfam protein families database
2. Basic local alignment search tool.
3. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.
4. The COG database: an updated version includes eukaryotes
5. Gene Ontology: tool for the unification of biology
6. A genomic perspective on protein families.
7. The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored (Nucleic Acids Res.)
8. Cytoscape: a software environment for integrated models of biomolecular interaction networks.
9. Data, information, knowledge and principle: back to metabolism in KEGG (Nucleic Acids Res.)
10. Integration of biological networks and gene expression data using Cytoscape (Nature Protocols)

Their papers

• STRING v10: protein–protein interaction networks, integrated over the tree of life (2014) — 9,777 citations
• The STRING database in 2017: quality-controlled protein–protein association networks, made broadly accessible (2016) — 6,517 citations
• eggNOG v4.0: nested orthology inference across 3686 organisms (2013) — 618 citations
• The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored (2010) — 3,517 citations
• STRING v11: protein–protein association networks with increased coverage, supporting functional discovery in genome-wide experimental datasets (2018) — 15,157 citations
• Fast Genome-Wide Functional Annotation through Orthology Assignment by eggNOG-Mapper (2016) — 2,475 citations
• STRING v9.1: protein-protein interaction networks, with increased coverage and integration (2012) — 4,385 citations
• Standardised Benchmarking in the Quest for Orthologs (2016) — 213 citations
• eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences (2015) — 1,948 citations
• eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses (2018) — 4,095 citations
• STITCH 4: integration of protein–chemical interactions with user data (2013) — 457 citations
• eggNOG v3.0: orthologous groups covering 1133 organisms at 41 different taxonomic ranges (2011) — 537 citations
• Version 4.0 of PaxDb: Protein abundance data, integrated across model organisms, tissues, and cell‐lines (2015) — 533 citations
• STITCH 3: zooming in on protein–chemical interactions (2011) — 303 citations
• The STRING database in 2023: protein–protein association networks and functional enrichment analyses for any sequenced genome of interest (2022) — 7,413 citations
• The STRING database in 2025: protein networks with directionality of regulation (2024) — 542 citations
• Correction to ‘The STRING database in 2021: customizable protein–protein networks, and functional characterization of user-uploaded gene/measurement sets’ (2021) — 333 citations
• The STRING database in 2021: customizable protein–protein networks, and functional characterization of user-uploaded gene/measurement sets (2020) — 6,503 citations
• The SIB Swiss Institute of Bioinformatics’ resources: focus on curated databases (2015) — 60 citations
• STITCH 5: augmenting protein–chemical interaction networks with tissue and affinity data (2015) — 1,484 citations