Demo Data from EDBT 2026 / reviewers in the wild / expert
Christian J. Griffioen
dblp:254/3500
· DBLP profile ↗
1ranked-venue papers
0as first author
0since 2021 · last 2019
—ORCID · none
Domains — the database's venue-derived domains; a paper can count in several
Applied, interdisciplinary, general and emerging computing · 1
Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.
| Interdisciplinary, comprehensive, and emerging computing
1 paper |
Bioinformatics and computational biology · 100% |
Topics — the 2 heaviest of 2, each with the papers that count most for it
| Topic | Weight | Papers | Last | Evidence papers |
|---|---|---|---|---|
Bioinformatics and computational biology › protein-protein interaction prediction
protein-protein interaction site prediction |
0.4 | 1 | 2019 | SeRenDIP: SEquential REmasteriNg to DerIve profiles for fast and accurate predictions of PPI interface positions · Bioinform. 2019 |
Bioinformatics and computational biology › protein-protein interaction prediction
sequence-based interface prediction |
0.4 | 1 | 2019 | SeRenDIP: SEquential REmasteriNg to DerIve profiles for fast and accurate predictions of PPI interface positions · Bioinform. 2019 |
Methods — techniques the papers use, named apart from their topics
sequence conservation profiling · 0.4random forest · 0.4PSI-BLAST · 0.4
| Year | Publication | Venue | Position |
|---|---|---|---|
| 2019 | SeRenDIP: SEquential REmasteriNg to DerIve profiles for fast and accurate predictions of PPI interface positionsabstractMOTIVATION: Interpretation of ubiquitous protein sequence data has become a bottleneck in biomolecular research, due to a lack of structural and other experimental annotation data for these proteins. Prediction of protein interaction sites from sequence may be a viable substitute. We therefore recently developed a sequence-based random forest method for protein-protein interface prediction, which yielded a significantly increased performance than other methods on both homomeric and heteromeric protein-protein interactions. Here, we present a webserver that implements this method efficiently. RESULTS: With the aim of accelerating our previous approach, we obtained sequence conservation profiles by re-mastering the alignment of homologous sequences found by PSI-BLAST. This yielded a more than 10-fold speedup and at least the same accuracy, as reported previously for our method; these results allowed us to offer the method as a webserver. The web-server interface is targeted to the non-expert user. The input is simply a sequence of the protein of interest, and the output a table with scores indicating the likelihood of having an interaction interface at a certain position. As the method is sequence-based and not sensitive to the type of protein interaction, we expect this webserver to be of interest to many biological researchers in academia and in industry. AVAILABILITY AND IMPLEMENTATION: Webserver, source code and datasets are available at www.ibi.vu.nl/programs/serendipwww/. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online. Qingzhen Hou, Paul F. G. De Geest, Christian J. Griffioen, Sanne Abeln, Jaap Heringa, K. Anton Feenstra |
Bioinform. | 3 |