Gil N, Shrestha R, Fiser A
Estimating the accuracy of pharmacophore-based detection of cognate receptor-ligand pairs in the immunoglobulin superfamily.
Proteins (2021) 89(6) : 632-638
Shrestha R, Fajardo JE, Fiser A
Residue-based pharmacophore approaches to study protein-protein interactions.
Curr Opin Struct Biol (2021) 67, 205-211
Zepecki JP, Karambizi D, Fajardo JE, Snyder KM, Guetta-Terrier C, Tang OY, Chen JS, Sarkar A, Fiser A, Toms SA, Tapinos N
miRNA-mediated loss of m6A increases nascent translation in glioblastoma.
PLoS Genet (2021) 17(3) : e1009086
Shrestha R, Garrett-Thomson SC, Liu W, Almo SC, Fiser A
Redesigning HVEM Interface for Selective Binding to LIGHT, BTLA, and CD160.
Structure (2020) 28(11) : 1197-1205.e2
Zhan HQ, Najmi M, Lin K, Aluri S, Fiser A, Goldman ID, Zhao R
A proton-coupled folate transporter mutation causing hereditary folate malabsorption locks the protein in an inward-open conformation.
J Biol Chem (2020) 295(46) : 15650-15661
Fajardo JE, Fiser A
A Designer Quest for the Achilles' Heel of Influenza.
Structure (2020) 28(10) : 1083-1084
Fajardo JE, Shrestha R, Gil N, Belsom A, Crivelli SN, Czaplewski C, Fidelis K, Grudinin S, Karasikov M, Karczynska AS, Kryshtafovych A, Leitner A, Liwo A, Lubecka EA, Monastyrskyy B, Pages G, Rappsilber J, Sieradzan AK, Sikorska C, Trabjerg E, Fiser A
Assessment of chemical-crosslink-assisted protein structure modeling in CASP13.
Proteins (2020) 88(3) : 540
Gil N, Fajardo EJ, Fiser A
Discovery of receptor-ligand interfaces in the immunoglobulin superfamily.
Proteins (2020) 88(1) : 135-142
Shrestha R, Garrett SC, Almo SC, Fiser A
Computational Redesign of PD-1 Interface for PD-L1 Ligand Selectivity.
Structure (2019) 27(5) : 829-836.e3
Viswanathan R, Fajardo E, Steinberg G, Haller M, Fiser A
Protein-protein binding supersites.
PLoS Comput Biol (2019) 15(1) : e1006704
Shrestha R, Fajardo E, Gil N, Fidelis K, Kryshtafovych A, Monastyrskyy B, Fiser A
Assessing the accuracy of contact predictions in CASP13.
Proteins (2019) 87(12) : 1058-1068
Gil N, Fiser A
The choice of sequence homologs included in multiple sequence alignments has a dramatic impact on evolutionary conservation analysis.
Bioinformatics (2018) ,06:27
Gil N, Fiser A
Identifying Functionally Informative Evolutionary Sequence Profiles.
Bioinformatics (2018) 34:8, 1278-1286
Yap EH, Fiser A
ProtLID, a Residue-Based Pharmacophore Approach to Identify Cognate Protein Ligands in the Immunoglobulin Superfamily.
Structure (2016) 24(12) : 2217-2226
Dybas JM, Fiser A
Development of a motif-based topology-independent structure comparison method to identify evolutionarily related folds.
Proteins (2016) 84(12) : 1859-1874
Vallat B, Madrid-Aliste C, Fiser A
Modularity of Protein Folds as a Tool for Template-Free Modeling of Structures.
PLoS Comput Biol (2015) 11(8) : e1004419
Pujato M, Kieken F, Skiles AA, Tapinos N, Fiser A.
Prediction of DNA binding motifs from 3D models of transcription factors; identifying TLX3 regulated genes.
Nucleic Acids Res (2014);4222:13500-12
Khafizov K, Madrid-Aliste C, Almo SC, Fiser A
Trends in structural coverage of the protein universe and the impact of the Protein Structure Initiative.
Proc Natl Acad Sci U S A (2014) 111(10) : 3733-8
Yap EH, Rosche T, Almo S, Fiser A
Functional clustering of immunoglobulin superfamily proteins with protein-protein interaction information calibrated hidden markov model sequence profiles.
J Mol Biol (2014) 426(4) : 945-61
Rubinstein R, Ramagopal UA, Nathenson SG,Almo SC, Fiser A
Functional classification of immune regulatory proteins.
Structure (2013) 21(5): 766-76
Menon V, Vallat BK, Dybas JM, Fiser A
Modeling proteins using a super-secondary structure library and NMR chemcial shift information.
Structure (2013) 21(6): 891-9
Pujato M, MacCarthy T, Fiser A, Bergman A.
The underlying molecular and network level mechanism in the evolution of robustness in gene regulatory networks.
Plos Comput. Biol. (2013) 9(1)