Publications by authors named "Kuldip Paliwal"

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RNA structure prediction using deep learning - A comprehensive review.
Mayank Chaturvedi, Mahmood A Rashid, Kuldip K Paliwal

Comput Biol Med· April 2025

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Transformers in RNA structure prediction: A review.
Mayank Chaturvedi, Mahmood A Rashid, Kuldip K Paliwal

Comput Struct Biotechnol J· March 2025

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Predicting RNA distance-based contact maps by integrated deep learning on physics-inferred secondary structure and evolutionary-derived mutational coupling.
Jaswinder Singh, Kuldip Paliwal, Thomas Litfin, Jaspreet Singh, Yaoqi Zhou

Bioinformatics· August 2022

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Probing RNA structures and functions by solvent accessibility: an overview from experimental and computational perspectives.
Md Solayman, Thomas Litfin, Jaswinder Singh, Kuldip Paliwal, Yaoqi Zhou

Brief Bioinform· May 2022

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Reaching alignment-profile-based accuracy in predicting protein secondary and tertiary structural properties without alignment.
Jaspreet Singh, Kuldip Paliwal, Thomas Litfin, Jaswinder Singh, Yaoqi Zhou

Sci Rep· May 2022

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SPOT-Contact-LM: improving single-sequence-based prediction of protein contact map using a transformer language model.
Jaspreet Singh, Thomas Litfin, Jaswinder Singh, Kuldip Paliwal, Yaoqi Zhou

Bioinformatics· March 2022

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SPOT-1D-Single: improving the single-sequence-based prediction of protein secondary structure, backbone angles, solvent accessibility and half-sphere exposures using a large training set and ensembled deep learning.
Jaspreet Singh, Thomas Litfin, Kuldip Paliwal, Jaswinder Singh, Anil Kumar Hanumanthappa

Bioinformatics· October 2021

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RNAcmap: a fully automatic pipeline for predicting contact maps of RNAs by evolutionary coupling analysis.
Tongchuan Zhang, Jaswinder Singh, Thomas Litfin, Jian Zhan, Kuldip Paliwal

Bioinformatics· October 2021

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Improved RNA secondary structure and tertiary base-pairing prediction using evolutionary profile, mutational coupling and two-dimensional transfer learning.
Jaswinder Singh, Kuldip Paliwal, Tongchuan Zhang, Jaspreet Singh, Thomas Litfin

Bioinformatics· September 2021

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RNA Backbone Torsion and Pseudotorsion Angle Prediction Using Dilated Convolutional Neural Networks.
Jaswinder Singh, Kuldip Paliwal, Jaspreet Singh, Yaoqi Zhou

J Chem Inf Model· June 2021

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On training targets for deep learning approaches to clean speech magnitude spectrum estimation.
Aaron Nicolson, Kuldip K Paliwal

J Acoust Soc Am· May 2021

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An objective measure of quality for time-scale modification of audio.
Timothy Roberts, Kuldip K Paliwal

J Acoust Soc Am· March 2021

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Single-sequence and profile-based prediction of RNA solvent accessibility using dilated convolutional neural network.
Anil Kumar Hanumanthappa, Jaswinder Singh, Kuldip Paliwal, Jaspreet Singh, Yaoqi Zhou

Bioinformatics· January 2021

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Spectral distortion level resulting in a just-noticeable difference between an a priori signal-to-noise ratio estimate and its instantaneous case.
Aaron Nicolson, Kuldip K Paliwal

J Acoust Soc Am· October 2020

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A time-scale modification dataset with subjective quality labels.
Timothy Roberts, Kuldip K Paliwal

J Acoust Soc Am· July 2020

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Getting to Know Your Neighbor: Protein Structure Prediction Comes of Age with Contextual Machine Learning.
Jack Hanson, Kuldip K Paliwal, Thomas Litfin, Yuedong Yang, Yaoqi Zhou

J Comput Biol· May 2020

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DEPICTER: Intrinsic Disorder and Disorder Function Prediction Server.
Amita Barik, Akila Katuwawala, Jack Hanson, Kuldip Paliwal, Yaoqi Zhou

J Mol Biol· May 2020

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SPOT-Fold: Fragment-Free Protein Structure Prediction Guided by Predicted Backbone Structure and Contact Map.
Yufeng Cai, Xiongjun Li, Zhe Sun, Yutong Lu, Huiying Zhao, Kuldip Paliwal

J Comput Chem· March 2020

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Identifying molecular recognition features in intrinsically disordered regions of proteins by transfer learning.
Jack Hanson, Thomas Litfin, Kuldip Paliwal, Yaoqi Zhou

Bioinformatics· February 2020

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SPOT-Disorder2: Improved Protein Intrinsic Disorder Prediction by Ensembled Deep Learning.
Jack Hanson, Kuldip K Paliwal, Thomas Litfin, Yaoqi Zhou

Genomics Proteomics Bioinformatics· December 2019

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RNA secondary structure prediction using an ensemble of two-dimensional deep neural networks and transfer learning.
Jaswinder Singh, Jack Hanson, Kuldip Paliwal, Yaoqi Zhou

Nat Commun· November 2019

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Improving prediction of protein secondary structure, backbone angles, solvent accessibility and contact numbers by using predicted contact maps and an ensemble of recurrent and residual convolutional neural networks.
Jack Hanson, Kuldip Paliwal, Thomas Litfin, Yuedong Yang, Yaoqi Zhou

Bioinformatics· July 2019

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Accurate Single-Sequence Prediction of Protein Intrinsic Disorder by an Ensemble of Deep Recurrent and Convolutional Architectures.
Jack Hanson, Kuldip Paliwal, Yaoqi Zhou

J Chem Inf Model· November 2018

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Single-sequence-based prediction of protein secondary structures and solvent accessibility by deep whole-sequence learning.
Rhys Heffernan, Kuldip Paliwal, James Lyons, Jaswinder Singh, Yuedong Yang

J Comput Chem· October 2018

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Detecting Proline and Non-Proline Cis Isomers in Protein Structures from Sequences Using Deep Residual Ensemble Learning.
Jaswinder Singh, Jack Hanson, Rhys Heffernan, Kuldip Paliwal, Yuedong Yang

J Chem Inf Model· September 2018

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