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Thomas Litfin
Thomas Litfin
Postdoctoral Research Fellow, Griffith University
Verified email at griffithuni.edu.au
Title
Cited by
Cited by
Year
Accurate prediction of protein contact maps by coupling residual two-dimensional bidirectional long short-term memory with convolutional neural networks
J Hanson, K Paliwal, T Litfin, Y Yang, Y Zhou
Bioinformatics 34 (23), 4039-4045, 2018
1462018
Improving prediction of protein secondary structure, backbone angles, solvent accessibility and contact numbers by using predicted contact maps and an ensemble of recurrent and …
J Hanson, K Paliwal, T Litfin, Y Yang, Y Zhou
Bioinformatics 35 (14), 2403-2410, 2019
1272019
SPOT-Disorder2: improved protein intrinsic disorder prediction by ensembled deep learning
J Hanson, KK Paliwal, T Litfin, Y Zhou
Genomics, proteomics & bioinformatics 17 (6), 645-656, 2019
672019
Nucleotide sugar transporter SLC35 family structure and function
B Hadley, T Litfin, CJ Day, T Haselhorst, Y Zhou, J Tiralongo
Computational and structural biotechnology journal 17, 1123-1134, 2019
302019
Identifying molecular recognition features in intrinsically disordered regions of proteins by transfer learning
J Hanson, T Litfin, K Paliwal, Y Zhou
Bioinformatics 36 (4), 1107-1113, 2020
252020
SPOT-ligand 2: improving structure-based virtual screening by binding-homology search on an expanded structural template library
T Litfin, Y Zhou, Y Yang
Bioinformatics 33 (8), 1238-1240, 2017
192017
Improved RNA secondary structure and tertiary base-pairing prediction using evolutionary profile, mutational coupling and two-dimensional transfer learning
J Singh, K Paliwal, T Zhang, J Singh, T Litfin, Y Zhou
Bioinformatics 37 (17), 2589-2600, 2021
182021
Getting to know your neighbor: protein structure prediction comes of age with contextual machine learning
J Hanson, KK Paliwal, T Litfin, Y Yang, Y Zhou
Journal of Computational Biology 27 (5), 796-814, 2020
162020
SPOT-1D-Single: improving the single-sequence-based prediction of protein secondary structure, backbone angles, solvent accessibility and half-sphere exposures using a large …
J Singh, T Litfin, K Paliwal, J Singh, AK Hanumanthappa, Y Zhou
Bioinformatics 37 (20), 3464-3472, 2021
152021
Large expert-curated database for benchmarking document similarity detection in biomedical literature search
P Brown, AC Tan, MA El-Esawi, T Liehr, O Blanck, DP Gladue, ...
Database 2019, 2019
152019
Spot-peptide: template-based prediction of peptide-binding proteins and peptide-binding sites
T Litfin, Y Yang, Y Zhou
Journal of chemical information and modeling 59 (2), 924-930, 2019
142019
Systematic Analysis of REBASE Identifies Numerous Type I Restriction-Modification Systems with Duplicated, Distinct hsdS Specificity Genes That Can Switch …
JM Atack, C Guo, T Litfin, L Yang, PJ Blackall, Y Zhou, MP Jennings
Msystems 5 (4), e00497-20, 2020
102020
RNAcmap: a fully automatic pipeline for predicting contact maps of RNAs by evolutionary coupling analysis
T Zhang, J Singh, T Litfin, J Zhan, K Paliwal, Y Zhou
Bioinformatics 37 (20), 3494-3500, 2021
72021
SPOT‐Fold: Fragment‐Free Protein Structure Prediction Guided by Predicted Backbone Structure and Contact Map
Y Cai, X Li, Z Sun, Y Lu, H Zhao, J Hanson, K Paliwal, T Litfin, Y Zhou, ...
Journal of Computational Chemistry 41 (8), 745-750, 2020
72020
YesU from Bacillus subtilis preferentially binds fucosylated glycans
J Tiralongo, O Cooper, T Litfin, Y Yang, R King, J Zhan, H Zhao, N Bovin, ...
Scientific reports 8 (1), 1-10, 2018
72018
SPOT-Contact-LM: improving single-sequence-based prediction of protein contact map using a transformer language model
J Singh, T Litfin, J Singh, K Paliwal, Y Zhou
Bioinformatics 38 (7), 1888-1894, 2022
52022
SPOT-Contact-Single: Improving Single-Sequence-Based Prediction of Protein Contact Map using a Transformer Language Model
J Singh, T Litfin, J Singh, K Paliwal, Y Zhou
bioRxiv, 2021
22021
Reaching alignment-profile-based accuracy in predicting protein secondary and tertiary structural properties without alignment
J Singh, K Paliwal, T Litfin, J Singh, Y Zhou
Scientific reports 12 (1), 1-9, 2022
12022
Probing RNA structures and functions by solvent accessibility: an overview from experimental and computational perspectives
M Solayman, T Litfin, J Singh, K Paliwal, Y Zhou, J Zhan
Briefings in Bioinformatics 23 (3), bbac112, 2022
12022
RNAcmap: a fully automatic method for predicting contact maps of RNAs by evolutionary coupling analysis
T Zhang, J Singh, T Litfin, J Zhan, K Paliwal, Y Zhou
bioRxiv, 2020
12020
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