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Table 1 Computational methods for RBP binding preference prediction

From: Deep neural networks for inferring binding sites of RNA-binding proteins by using distributed representations of RNA primary sequence and secondary structure

Method

Sequence

Structure

Reference

RNAcontext

Yes

Yes

[12]

GraphProt

Yes

Yes

[14]

iONMF

Yes

Yes

[15]

Oli

Yes

Yes

[16]

RNAcommender

Yes

Yes

[17]

RCK

Yes

Yes

[13]

DeepBind

Yes

No

[18]

Deepnet-rbp

Yes

No

[19]

DanQ

Yes

No

[20]

iDeepS

Yes

Yes

[21]

iDeepV

Yes

No

[22]

Pysster

Yes

Yes

[23]

DLPRB

Yes

Yes

[24]

  1. “Yes” and “No” means whether the computational methods uses sequence and structure information to predict the binding site
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BMC Genomics

ISSN: 1471-2164

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