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omiXcore: a web server for prediction of protein interactions with large RNA

Alexandros Armaos, Davide Cirillo, Gian Gaetano Tartaglia, Ivo Hofacker
2017 Bioinformatics  
Here we introduce omiXcore, a server for calculations of protein binding to large RNAs (> 500 nucleotides).  ...  Our webserver allows (i) use of both protein and RNA sequences without size restriction, (ii) pre-compiled library for exploration of human long intergenic RNAs interactions and (iii) prediction of binding  ...  Acknowledgement We would like to thank Fernando Cid for stimulating discussions.  ... 
doi:10.1093/bioinformatics/btx361 pmid:28637296 pmcid:PMC5870566 fatcat:drqnf7nfmbdchjweepm6zxk6tq

Structural analysis of SARS-CoV-2 and prediction of the human interactome [article]

Andrea Vandelli, Michele Monti, Edoardo Milanetti, Riccardo Delli Ponti, Gian Gaetano Tartaglia
2020 bioRxiv   pre-print
We propose these proteins, also implicated in HIV replication, to be further investigated for a better understanding of host-virus interaction mechanisms.  ...  Using the catRAPID method, we computed 3500 protein interactions with the 5 prime end and identified Cyclin T1 CCNT1, ATP-dependent RNA helicase DDX1, Zinc Finger Protein ZNF175 and other 20 high-confidence  ...  Armaos, A., Cirillo, D. & Gaetano Tartaglia, G. omiXcore: a web server for prediction of 775 protein interactions with large RNA. Bioinformatics (2017) doi:10.1093/bioinformatics/btx361. 776 52.  ... 
doi:10.1101/2020.03.28.013789 fatcat:d3y5i4gianbf3ewlacsfhpmezq