Jan Hoinka
Jan Hoinka
National Center of Biotechnology Information, National Library of Medicine, NIH, Bethesda MD 20894
Verified email at nih.gov - Homepage
TitleCited byYear
Large scale analysis of the mutational landscape in HT-SELEX improves aptamer discovery
J Hoinka, A Berezhnoy, P Dao, ZE Sauna, E Gilboa, TM Przytycka
Nucleic acids research 43 (12), 5699-5707, 2015
662015
Identification of sequence–structure RNA binding motifs for SELEX-derived aptamers
J Hoinka, E Zotenko, A Friedman, ZE Sauna, TM Przytycka
Bioinformatics 28 (12), i215-i223, 2012
632012
AptaCluster–A Method to Cluster HT-SELEX Aptamer Pools and Lessons from Its Application
J Hoinka, A Berezhnoy, ZE Sauna, E Gilboa, TM Przytycka
International Conference on Research in Computational Molecular Biology, 115-128, 2014
442014
Identifying high-affinity aptamer ligands with defined cross-reactivity using high-throughput guided systematic evolution of ligands by exponential enrichment
A Levay, R Brenneman, J Hoinka, D Sant, M Cardone, G Trinchieri, ...
Nucleic acids research 43 (12), e82-e82, 2015
342015
Highly Constrained Bicyclic Scaffolds for the Discovery of Protease-Stable Peptides via mRNA Display
DE Hacker, J Hoinka, ES Iqbal, TM Przytycka, MCT Hartman
ACS chemical biology 12 (3), 795-804, 2017
242017
AptaTRACE elucidates RNA sequence-structure motifs from selection trends in HT-SELEX experiments
P Dao, J Hoinka, M Takahashi, J Zhou, M Ho, Y Wang, F Costa, JJ Rossi, ...
Cell systems 3 (1), 62-70, 2016
212016
AptaSUITE: a full-featured bioinformatics framework for the comprehensive analysis of aptamers from HT-SELEX experiments
J Hoinka, R Backofen, TM Przytycka
Molecular Therapy-Nucleic Acids 11, 515-517, 2018
122018
AptaPLEX–A dedicated, multithreaded demultiplexer for HT-SELEX data
J Hoinka, T Przytycka
Methods 106, 82-85, 2016
112016
AptaGUI—A graphical user interface for the efficient analysis of HT-SELEX data
J Hoinka, P Dao, TM Przytycka
Molecular Therapy-Nucleic Acids 4, 2015
102015
A 2′ FY-RNA motif defines an aptamer for Ebolavirus secreted protein
S Shubham, J Hoinka, S Banerjee, E Swanson, JA Dillard, ...
Scientific reports 8 (1), 1-11, 2018
62018
Co-SELECT reveals sequence non-specific contribution of DNA shape to transcription factor binding in vitro
S Pal, J Hoinka, TM Przytycka
Nucleic acids research 47 (13), 6632-6641, 2019
42019
Subpopulation detection and their comparative analysis across single-cell experiments with scpopcorn
Y Wang, J Hoinka, TM Przytycka
Cell systems 8 (6), 506-513. e5, 2019
42019
AptaBlocks: Designing RNA complexes and accelerating RNA-based drug delivery systems
Y Wang, J Hoinka, Y Liang, T Adamus, P Swiderski, TM Przytycka
Nucleic acids research 46 (16), 8133-8142, 2018
22018
AptaBlocks Online-A web-based toolkit for the in-silico assembly of RNA complexes
J Hoinka, Y Wang, TM Przytycka
arXiv preprint arXiv:1903.05657, 2019
2019
AptaBlocks: Accelerating the Design of RNA-Based Drug Delivery Systems.
Y Wang, J Hoinka, P Swiderski, TM Przytycka
RECOMB, 287-288, 2018
2018
Accurate sub-population detection and mapping across single cell experiments with PopCorn
Y Wang, J Hoinka, TM Przytycka
BioRxiv, 485979, 2018
2018
Novel analysis of HT-SELEX data elucidates the role of DNA shape in transcription factor binding
S Pal, J Hoinka, TM Przytycka
bioRxiv, 413922, 2018
2018
Aptamers in the Age of Big Data : Development and Application of Algorithmic Solutions in the Field of High-Throughput Systematic Evolution of Ligands by Exponental Enrichment
J Hoinka
Universität Freiburg, 2016
2016
Finding the Hairpin in the Haystack: Towards an High Throughput in Silico Pipeline for Aptamer Motif Identification using SELEX Data
JM Hoinka
Universität des Saarlandes Saarbrücken, 2011
2011
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Articles 1–19