Matches in SemOpenAlex for { <https://semopenalex.org/work/W4317607596> ?p ?o ?g. }
- W4317607596 abstract "Abstract Identifying protein-protein interactions (PPIs) is crucial for deciphering biological pathways and their dysregulation. Numerous prediction methods have been developed as a cheap alternative to biological experiments, reporting surprisingly high accuracy estimates. We systematically investigated how much reproducible deep learning models depend on data leakage, sequence similarities, and node degree information and compared them to basic machine learning models. We found that overlaps between training and test sets resulting from random splitting lead to strongly overestimated performances. In this setting, models learn solely from sequence similarities and node degrees. When data leakage is avoided by minimizing sequence similarities between training and test set, performances become random. Moreover, we find that baseline models directly leveraging sequence similarity and network topology show good performance at a fraction of the computational cost. Thus we advocate that any improvements are reported relative to baseline methods in the future. Our findings suggest that predicting protein-protein interactions remains an unsolved task for proteins showing little sequence similarity to previously studied proteins, highlighting that further experimental research into the dark protein interactome and better computational methods are needed." @default.
- W4317607596 created "2023-01-21" @default.
- W4317607596 creator A5032713341 @default.
- W4317607596 creator A5035928806 @default.
- W4317607596 creator A5087738237 @default.
- W4317607596 date "2023-01-20" @default.
- W4317607596 modified "2023-10-17" @default.
- W4317607596 title "Cracking the black box of deep sequence-based protein-protein interaction prediction" @default.
- W4317607596 cites W125936143 @default.
- W4317607596 cites W1504401263 @default.
- W4317607596 cites W1534302414 @default.
- W4317607596 cites W1886978693 @default.
- W4317607596 cites W1977391294 @default.
- W4317607596 cites W1982267716 @default.
- W4317607596 cites W1990315216 @default.
- W4317607596 cites W2008840001 @default.
- W4317607596 cites W2044523575 @default.
- W4317607596 cites W2044932922 @default.
- W4317607596 cites W2056335234 @default.
- W4317607596 cites W2111761681 @default.
- W4317607596 cites W2117407746 @default.
- W4317607596 cites W2128900650 @default.
- W4317607596 cites W2131562240 @default.
- W4317607596 cites W2134197776 @default.
- W4317607596 cites W2152568394 @default.
- W4317607596 cites W2152705149 @default.
- W4317607596 cites W2161922860 @default.
- W4317607596 cites W2164744737 @default.
- W4317607596 cites W2170747616 @default.
- W4317607596 cites W2230749025 @default.
- W4317607596 cites W2340589369 @default.
- W4317607596 cites W2534390616 @default.
- W4317607596 cites W2571863445 @default.
- W4317607596 cites W2616246685 @default.
- W4317607596 cites W2736287575 @default.
- W4317607596 cites W2767227490 @default.
- W4317607596 cites W2890911678 @default.
- W4317607596 cites W2915071038 @default.
- W4317607596 cites W2919831875 @default.
- W4317607596 cites W2952253955 @default.
- W4317607596 cites W2957436444 @default.
- W4317607596 cites W3008628004 @default.
- W4317607596 cites W3016353786 @default.
- W4317607596 cites W3037097018 @default.
- W4317607596 cites W3081019734 @default.
- W4317607596 cites W3088083483 @default.
- W4317607596 cites W3101509328 @default.
- W4317607596 cites W3177828909 @default.
- W4317607596 cites W3194575560 @default.
- W4317607596 cites W3199468887 @default.
- W4317607596 cites W3202105508 @default.
- W4317607596 cites W3217314753 @default.
- W4317607596 cites W4213041764 @default.
- W4317607596 cites W4213382600 @default.
- W4317607596 cites W4226343290 @default.
- W4317607596 cites W4292634579 @default.
- W4317607596 cites W4296293027 @default.
- W4317607596 cites W4362720950 @default.
- W4317607596 doi "https://doi.org/10.1101/2023.01.18.524543" @default.
- W4317607596 hasPublicationYear "2023" @default.
- W4317607596 type Work @default.
- W4317607596 citedByCount "4" @default.
- W4317607596 countsByYear W43176075962022 @default.
- W4317607596 countsByYear W43176075962023 @default.
- W4317607596 crossrefType "posted-content" @default.
- W4317607596 hasAuthorship W4317607596A5032713341 @default.
- W4317607596 hasAuthorship W4317607596A5035928806 @default.
- W4317607596 hasAuthorship W4317607596A5087738237 @default.
- W4317607596 hasBestOaLocation W43176075961 @default.
- W4317607596 hasConcept C10010492 @default.
- W4317607596 hasConcept C103278499 @default.
- W4317607596 hasConcept C104317684 @default.
- W4317607596 hasConcept C115961682 @default.
- W4317607596 hasConcept C119857082 @default.
- W4317607596 hasConcept C124101348 @default.
- W4317607596 hasConcept C127413603 @default.
- W4317607596 hasConcept C154945302 @default.
- W4317607596 hasConcept C167625842 @default.
- W4317607596 hasConcept C169903167 @default.
- W4317607596 hasConcept C2778112365 @default.
- W4317607596 hasConcept C41008148 @default.
- W4317607596 hasConcept C54355233 @default.
- W4317607596 hasConcept C60644358 @default.
- W4317607596 hasConcept C62611344 @default.
- W4317607596 hasConcept C66938386 @default.
- W4317607596 hasConcept C70721500 @default.
- W4317607596 hasConcept C86803240 @default.
- W4317607596 hasConcept C9760119 @default.
- W4317607596 hasConceptScore W4317607596C10010492 @default.
- W4317607596 hasConceptScore W4317607596C103278499 @default.
- W4317607596 hasConceptScore W4317607596C104317684 @default.
- W4317607596 hasConceptScore W4317607596C115961682 @default.
- W4317607596 hasConceptScore W4317607596C119857082 @default.
- W4317607596 hasConceptScore W4317607596C124101348 @default.
- W4317607596 hasConceptScore W4317607596C127413603 @default.
- W4317607596 hasConceptScore W4317607596C154945302 @default.
- W4317607596 hasConceptScore W4317607596C167625842 @default.
- W4317607596 hasConceptScore W4317607596C169903167 @default.
- W4317607596 hasConceptScore W4317607596C2778112365 @default.
- W4317607596 hasConceptScore W4317607596C41008148 @default.