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Janusz M. Bujnicki
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2020 – today
- 2023
- [j53]Natalia A Szulc, Zuzanna Mackiewicz
, Janusz M. Bujnicki, Filip Stefaniak
Structural interaction fingerprints and machine learning for predicting and explaining binding of small molecule ligands to RNA. Briefings Bioinform. 24(4) (2023) - [j52]Grzegorz Chojnowski, Rafal Zaborowski, Marcin Magnus
RNA 3D structure modeling by fragment assembly with small-angle X-ray scattering restraints. Bioinform. 39(9) (2023) - [j51]Andrea Cappannini
NACDDB: Nucleic Acid Circular Dichroism Database. Nucleic Acids Res. 51(D1): 226-231 (2023) - 2022
- [j50]Pietro Boccaletto
MODOMICS: a database of RNA modification pathways. 2021 update. Nucleic Acids Res. 50(D1): 2231-235 (2022) - [j49]Razieh Mohammadi-Arani
DNAzymeBuilder, a web application for in situ generation of RNA/DNA-cleaving deoxyribozymes. Nucleic Acids Res. 50(W1): 261-265 (2022) - [j48]Natalia Szulc
fingeRNAt - A novel tool for high-throughput analysis of nucleic acid-ligand interactions. PLoS Comput. Biol. 18(6) (2022) - 2021
- [j47]Almudena Ponce-Salvatierra
DNAmoreDB, a database of DNAzymes. Nucleic Acids Res. 49(Database-Issue): D76-D81 (2021) - [j46]Filip Stefaniak
AnnapuRNA: A scoring function for predicting RNA-small molecule binding poses. PLoS Comput. Biol. 17(2) (2021) - 2020
- [j45]Tomasz K. Wirecki
RNAProbe: a web server for normalization and analysis of RNA structure probing data. Nucleic Acids Res. 48(Webserver-Issue): W292-W299 (2020)
2010 – 2019
- 2019
- [j44]Martyna Nowacka
RRMdb - an evolutionary-oriented database of RNA recognition motif sequences. Database J. Biol. Databases Curation 2019: bay148 (2019) - [j43]Marcin Magnus
RNA 3D structure prediction guided by independent folding of homologous sequences. BMC Bioinform. 20(1): 512:1-512:15 (2019) - 2018
- [j42]Pietro Boccaletto
RNArchitecture: a database and a classification system of RNA families, with a focus on structural information. Nucleic Acids Res. 46(Database-Issue): D202-D205 (2018) - [j41]Pietro Boccaletto
MODOMICS: a database of RNA modification pathways. 2017 update. Nucleic Acids Res. 46(Database-Issue): D303-D307 (2018) - 2016
- [j40]Marcin Magnus
SimRNAweb: a web server for RNA 3D structure modeling with optional restraints. Nucleic Acids Res. 44(Webserver-Issue): W315-W319 (2016) - 2015
- [j39]Michal J. Pietal
GDFuzz3D: a method for protein 3D structure reconstruction from contact maps, based on a non-Euclidean distance function. Bioinform. 31(21): 3499-3505 (2015) - [j38]Magdalena A. Machnicka
Phylogenomics and sequence-structure-function relationships in the GmrSD family of Type IV restriction enzymes. BMC Bioinform. 16: 336:1-336:16 (2015) - [j37]Irina Tuszynska, Marcin Magnus
NPDock: a web server for protein-nucleic acid docking. Nucleic Acids Res. 43(Webserver-Issue): W425-W430 (2015) - 2014
- [j36]Grzegorz Chojnowski
RNA Bricks - a database of RNA 3D motifs and their interactions. Nucleic Acids Res. 42(Database-Issue): 123-131 (2014) - 2013
- [j35]Magdalena A. Machnicka
MODOMICS: a database of RNA modification pathways - 2013 update. Nucleic Acids Res. 41(Database-Issue): 262-267 (2013) - [j34]Kaja Milanowska
RNApathwaysDB - a database of RNA maturation and decay pathways. Nucleic Acids Res. 41(Database-Issue): 268-272 (2013) - [j33]Marcin Pawlowski, Albert Bogdanowicz
QA-RecombineIt: a server for quality assessment and recombination of protein models. Nucleic Acids Res. 41(Webserver-Issue): 389-397 (2013) - [j32]Janusz M. Bujnicki, Jerzy Tiuryn
Bioinformatics and Computational Biology in Poland. PLoS Comput. Biol. 9(5) (2013) - 2012
- [j31]Kristian Rother, Wojciech Potrzebowski
A toolbox for developing bioinformatics software. Briefings Bioinform. 13(2): 244-257 (2012) - [j30]Anna Philips
MetalionRNA: computational predictor of metal-binding sites in RNA structures. Bioinform. 28(2): 198-205 (2012) - [j29]Grzegorz Chojnowski
RIBER/DIBER: a software suite for crystal content analysis in the studies of protein-nucleic acid complexes. Bioinform. 28(6): 880-881 (2012) - [j28]Lukasz Pawel Kozlowski
MetaDisorder: a meta-server for the prediction of intrinsic disorder in proteins. BMC Bioinform. 13: 111 (2012) - [j27]Joanna M. Kasprzak, Anna Czerwoniec, Janusz M. Bujnicki:
Molecular evolution of dihydrouridine synthases. BMC Bioinform. 13: 153 (2012) - [j26]Marcin Pawlowski, Janusz M. Bujnicki:
The utility of comparative models and the local model quality for protein crystal structure determination by Molecular Replacement. BMC Bioinform. 13: 289 (2012) - [j25]Michal J. Pietal
RNAmap2D - calculation, visualization and analysis of contact and distance maps for RNA and protein-RNA complex structures. BMC Bioinform. 13: 333 (2012) - [j24]Iga Korneta, Janusz M. Bujnicki:
Intrinsic Disorder in the Human Spliceosomal Proteome. PLoS Comput. Biol. 8(8) (2012) - 2011
- [j23]Magdalena Rother, Kristian Rother, Tomasz Puton, Janusz M. Bujnicki:
RNA tertiary structure prediction with ModeRNA. Briefings Bioinform. 12(6): 601-613 (2011) - [j22]Magdalena Rother, Kaja Milanowska
ModeRNA server: an online tool for modeling RNA 3D structures. Bioinform. 27(17): 2441-2442 (2011) - [j21]Irina Tuszynska
DARS-RNP and QUASI-RNP: New statistical potentials for protein-RNA docking. BMC Bioinform. 12: 348 (2011) - [j20]Kaja Milanowska
REPAIRtoire - a database of DNA repair pathways. Nucleic Acids Res. 39(Database-Issue): 788-792 (2011) - 2010
- [j19]Michal J. Gajda, Irina Tuszynska
FILTREST3D: discrimination of structural models using restraints from experimental data. Bioinform. 26(23): 2986-2987 (2010) - [i1]Magdalena Musielak, Kristian Rother, Tomasz Puton, Janusz M. Bujnicki:
ModeRNA builds RNA 3D Models from Template Structures. ERCIM News 2010(82): 19 (2010)
2000 – 2009
- 2009
- [j18]Raphael André Bauer, Kristian Rother, Peter Moor, Knut Reinert
Fast Structural Alignment of Biomolecules Using a Hash Table, N-Grams and String Descriptors. Algorithms 2(2): 692-709 (2009) - [j17]Anna Czerwoniec, Stanislaw Dunin-Horkawicz
MODOMICS: a database of RNA modification pathways, update 2008. Nucleic Acids Res. 37(Database-Issue): 118-121 (2009) - 2008
- [j16]Marcin Pawlowski, Michal J. Gajda
MetaMQAP: A meta-server for the quality assessment of protein models. BMC Bioinform. 9 (2008) - 2007
- [j15]Jerzy Orlowski, Michal J. Boniecki
I-Ssp6803I: the first homing endonuclease from the PD-(D/E)XK superfamily exhibits an unusual mode of DNA recognition. Bioinform. 23(5): 527-530 (2007) - [j14]Michal J. Pietal
PROTMAP2D: visualization, comparison and analysis of 2D maps of protein structure. Bioinform. 23(11): 1429-1430 (2007) - [j13]Karolina L. Tkaczuk, Stanislaw Dunin-Horkawicz
Structural and evolutionary bioinformatics of the SPOUT superfamily of methyltransferases. BMC Bioinform. 8 (2007) - 2006
- [j12]Stanislaw Dunin-Horkawicz
MODOMICS: a database of RNA modification pathways. Nucleic Acids Res. 34(Database-Issue): 145-149 (2006) - 2005
- [j11]Iwona A. Cymerman, Gregor Meiss, Janusz M. Bujnicki:
DNase II is a member of the phospholipase D superfamily. Bioinform. 21(21): 3959-3962 (2005) - [j10]Jan Kosinski
The PD-(D/E)XK superfamily revisited: identification of new members among proteins involved in DNA metabolism and functional predictions for domains of (hitherto) unknown function. BMC Bioinform. 6: 172 (2005) - 2004
- [j9]Joanna M. Sasin, Janusz M. Bujnicki:
COLORADO3D, a web server for the visual analysis of protein structures. Nucleic Acids Res. 32(Web-Server-Issue): 586-589 (2004) - [c2]Shobha Potluri, Aly Azeem Khan, A. Kuzminykh, Janusz M. Bujnicki, Alan M. Friedman, Chris Bailey-Kellogg:
Geometric Analysis of Cross-Linkability for Protein Fold Discrimination. Pacific Symposium on Biocomputing 2004: 447-458 - 2003
- [j8]Michal A. Kurowski, Joanna M. Sasin, Marcin Feder, Janusz Debski, Janusz M. Bujnicki:
Characterization of the cofactor-binding site in the SPOUT-fold methyltransferases by computational docking of S-adenosylmethionine to three crystal structures. BMC Bioinform. 4: 9 (2003) - [j7]Michal A. Kurowski, Janusz M. Bujnicki:
GeneSilico protein structure prediction meta-server. Nucleic Acids Res. 31(13): 3305-3307 (2003) - [j6]Krzysztof Ginalski, Jakub Pas, Lucjan Stanislaw Wyrwicz, Marcin von Grotthuss, Janusz M. Bujnicki, Leszek Rychlewski:
ORFeus: detection of distant homology using sequence profiles and predicted secondary structure. Nucleic Acids Res. 31(13): 3804-3807 (2003) - [c1]Joanna M. Sasin, Michal A. Kurowski, Janusz M. Bujnicki:
STRUCLA: a WWW meta-server for protein structure comparison and evolutionary classification. ISMB (Supplement of Bioinformatics) 2003: 252-254 - 2002
- [j5]Janusz M. Bujnicki, Leszek Rychlewski, Daniel Fischer:
Fold-recognition detects an error in the Protein Data Bank. Bioinform. 18(10): 1391-1395 (2002) - [j4]Janusz M. Bujnicki, Leszek Rychlewski:
RNA: (guanine-N2) methyltransferases RsmC/RsmD and their homologs revisited - bioinformatic analysis and prediction of the active site based on the uncharacterized Mj0882 protein structure. BMC Bioinform. 3: 10 (2002) - 2001
- [j3]Janusz M. Bujnicki, Arne Elofsson, Daniel Fischer, Leszek Rychlewski:
Structure prediction meta server. Bioinform. 17(8): 750-751 (2001) - [j2]Janusz M. Bujnicki, Marcin Feder, Monika Radlinska
mRNA: guanine-N7 cap methyltransferases: identification of novel members of the family, evolutionary analysis, homology modeling, and analysis of sequence-structure-function relationships. BMC Bioinform. 2: 2 (2001)
1990 – 1999
- 1999
- [j1]Janusz M. Bujnicki:
Comparison of protein structures reveals monophyletic origin of AdoMet-dependent methyltransferase family and mechanistic convergence rather than recent differentiation of N4-cytosine and N6-adenine DNA methylation. Silico Biol. 1(4): 175-182 (1999)
Coauthor Index
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