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Published January 2017 | Supplemental Material
Journal Article Open

Quantitative predictions of protein interactions with long non-coding RNAs

Abstract

Long noncoding RNAs (lncRNAs, which comprise 68% of the human transcriptome with average length of 1,000 nt) interact with various RNA-binding proteins (RBPs) to mediate cellular functions1. Identification of lncRNA interactions through experimental methods is challenging and can be complemented by the use of computational models to predict protein partners. Yet it is currently impractical to calculate RBP–lncRNA interactions for large transcripts2.We introduce Global Score as a means to predict protein interactions with large RNAs (http://service.tartaglialab.com/new_submission/globalscore).

Additional Information

© 2017 Macmillan Publishers Limited. Published online 29 December 2016. We thank D. Whitworth and K. Havas for critical reading of the manuscript, the European Research Council (RIBOMYLOME_309545), MINECO (BFU2014-55054-P), Centro de Excelencia Severo Ochoa 2013–2017, and the European Molecular Biology Laboratory Grant-50800. Data availability. The webserver, documentation, and compiled stand-alone version of Global Score are available at http://service.tartaglialab.com/new_submission/globalscore. Data from HnrnpK, Ptbp1, Lbr, HnrnpU, Sharp, and Dkc1 eCLIP experiments are deposited at the GEO with codes (respectively) GSM2325771, GSM2299086, GSM2299085, GSM2325772, GSM2299084, and GSM2325770. The authors declare no competing financial interests.

Attached Files

Supplemental Material - nmeth.4100-S1.pdf

Supplemental Material - nmeth.4100-S2.xlsx

Supplemental Material - nmeth.4100-S3.xlsx

Supplemental Material - nmeth.4100-S4.xlsx

Supplemental Material - nmeth.4100-S5.xlsx

Supplemental Material - nmeth.4100-S6.xlsx

Supplemental Material - nmeth.4100-SF1.jpg

Supplemental Material - nmeth.4100-SF2.jpg

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Supplemental Material - nmeth.4100-SF5.jpg

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Supplemental Material - nmeth.4100-SF7.jpg

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Created:
August 19, 2023
Modified:
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