DeepSol: A deep learning framework for sequence-based protein solubility prediction

Sameer Khurana, Reda Rawi, Khalid Kunji, Gwo Yu Chuang, Halima Bensmail, RaghvenPhDa Mall

Research output: Contribution to journalArticle

12 Citations (Scopus)


Motivation: Protein solubility plays a vital role in pharmaceutical research and production yield. For a given protein, the extent of its solubility can represent the quality of its function, and is ultimately defined by its sequence. Thus, it is imperative to develop novel, highly accurate in silico sequence-based protein solubility predictors. In this work we propose, DeepSol, a novel Deep Learning-based protein solubility predictor. The backbone of our framework is a convolutional neural network that exploits k-mer structure and additional sequence and structural features extracted from the protein sequence. Results: DeepSol outperformed all known sequence-based state-of-the-art solubility prediction methods and attained an accuracy of 0.77 and Matthew's correlation coefficient of 0.55. The superior prediction accuracy of DeepSol allows to screen for sequences with enhanced production capacity and can more reliably predict solubility of novel proteins. Availability and implementation: DeepSol's best performing models and results are publicly deposited at (Khurana and Mall, 2018).

Original languageEnglish
Pages (from-to)2605-2613
Number of pages9
Issue number15
Publication statusPublished - 1 Jan 2018


ASJC Scopus subject areas

  • Statistics and Probability
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics

Cite this