Kristian Vlahovicek

Kristian Vlahovicek

UNVERIFIED PROFILE

Are you Kristian Vlahovicek?   Register this Author

Register author
Kristian Vlahovicek

Kristian Vlahovicek

Publications by authors named "Kristian Vlahovicek"

Are you Kristian Vlahovicek?   Register this Author

40Publications

590Reads

5Profile Views

Spatially clustered loci with multiple enhancers are frequent targets of HIV-1 integration.

Nat Commun 2019 Sep 6;10(1):4059. Epub 2019 Sep 6.

Department of Infectious Diseases, Integrative Virology, Heidelberg University Hospital and German Center for Infection Research, Heidelberg, Germany.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/s41467-019-12046-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6731298PMC
September 2019

Role of in maternal mRNA turnover.

Life Sci Alliance 2018 Aug 16;1(4):e201800084. Epub 2018 Jul 16.

Institute of Molecular Genetics of the Czech Academy of Sciences, Prague, Czech Republic.

View Article

Download full-text PDF

Source
http://www.life-science-alliance.org/lookup/doi/10.26508/lsa
Publisher Site
http://dx.doi.org/10.26508/lsa.201800084DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6238536PMC
August 2018

Big Data, Evolution, and Metagenomes: Predicting Disease from Gut Microbiota Codon Usage Profiles.

Methods Mol Biol 2016 ;1415:509-31

Bioinformatics Group, Division of Biology, Department of Molecular Biology, Faculty of Science, University of Zagreb, Rooseveltov trg 6, Zagreb, Croatia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-4939-3572-7_26DOI Listing
December 2017

Long non-coding RNA exchange during the oocyte-to-embryo transition in mice.

DNA Res 2017 Apr;24(2):129-141

Institute of Molecular Genetics, Academy of Sciences of the Czech Republic, Videnska 1083, 142 20 Prague 4, Czech Republic.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/dnares/dsw058DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5397607PMC
April 2017

Long non-coding RNA exchange during the oocyte-to-embryo transition in mice.

DNA Res 2017 04;24(2):219-220

Institute of Molecular Genetics, Academy of Sciences of the Czech Republic, Videnska 1083, 142 20 Prague 4, Czech Republic.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/dnares/dsx008DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5397605PMC
April 2017

The first murine zygotic transcription is promiscuous and uncoupled from splicing and 3' processing.

EMBO J 2015 Jun 20;34(11):1523-37. Epub 2015 Apr 20.

Department of Integrated Biosciences, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwa, Japan

View Article

Download full-text PDF

Source
http://dx.doi.org/10.15252/embj.201490648DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4474528PMC
June 2015

Genomation: a toolkit to summarize, annotate and visualize genomic intervals.

Bioinformatics 2015 Apr 21;31(7):1127-9. Epub 2014 Nov 21.

Friedrich Miescher Institute for Biomedical Research, 4058 Basel, Switzerland, Bioinformatics Group, Department of Molecular Biology, Faculty of Science, University of Zagreb, 10000 Zagreb, Croatia, Department of Physiology and Biophysics and the Institute for Computational Biomedicine, Weill Cornell Medical College, New York, NY 10021, USA, Faculty of Science, University of Basel, 4051 Basel, Switzerland and Department of Informatics, University of Oslo, NO-0316 Oslo, Norway Friedrich Miescher Institute for Biomedical Research, 4058 Basel, Switzerland, Bioinformatics Group, Department of Molecular Biology, Faculty of Science, University of Zagreb, 10000 Zagreb, Croatia, Department of Physiology and Biophysics and the Institute for Computational Biomedicine, Weill Cornell Medical College, New York, NY 10021, USA, Faculty of Science, University of Basel, 4051 Basel, Switzerland and Department of Informatics, University of Oslo, NO-0316 Oslo, Norway.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/btu775DOI Listing
April 2015

Cell-of-origin chromatin organization shapes the mutational landscape of cancer.

Nature 2015 Feb;518(7539):360-364

Division of Genetics, Department of Medicine, Brigham & Women's Hospital and Harvard Medical School, Boston, MA, 02115.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nature14221DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4405175PMC
February 2015

Exonic splicing signals impose constraints upon the evolution of enzymatic activity.

Nucleic Acids Res 2014 May 1;42(9):5790-8. Epub 2014 Apr 1.

Molecular Pathology Group, International Centre for Genetic Engineering and Biotechnology (ICGEB), Padriciano 99, 34149 Trieste, Italy

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gku240DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4027185PMC
May 2014

A retrotransposon-driven dicer isoform directs endogenous small interfering RNA production in mouse oocytes.

Cell 2013 Nov;155(4):807-16

Institute of Molecular Genetics, Academy of Sciences of the Czech Republic, Videnska 1083, 142 20 Prague 4, Czech Republic.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.cell.2013.10.001DOI Listing
November 2013

Environmental shaping of codon usage and functional adaptation across microbial communities.

Nucleic Acids Res 2013 Oct 5;41(19):8842-52. Epub 2013 Aug 5.

Bioinformatics Group, Department of Molecular Biology, Faculty of Science, University of Zagreb, Horvatovac 102a, 10000 Zagreb, Croatia, Institute of Biochemistry, Biological Research Centre of the Hungarian Academy of Sciences, Temesvári körút 62, H-6726 Szeged, Hungary, MRC Laboratory of Molecular Biology, Hills Road, Cambridge CB2 0QH, UK and Department of Informatics, University of Oslo, PO Box 1080 Blindern, NO-0316 Oslo, Norway.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkt673DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3799439PMC
October 2013

Prediction of interacting protein residues using sequence and structure data.

Methods Mol Biol 2012 ;819:233-51

Department of Molecular Biology, University of Zagreb, Zagreb, Croatia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-61779-465-0_16DOI Listing
April 2012

PRO-MINE: A bioinformatics repository and analytical tool for TARDBP mutations.

Hum Mutat 2011 Jan;32(1):E1948-58

Department of Molecular Biology, University of Zagreb, Croatia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1002/humu.21393DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3038324PMC
January 2011

Demosponge EST sequencing reveals a complex genetic toolkit of the simplest metazoans.

Mol Biol Evol 2010 Dec 9;27(12):2747-56. Epub 2010 Jul 9.

Department of Molecular Biology, Rudjer Boskovic Institute, Zagreb, Croatia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/molbev/msq174DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2981516PMC
December 2010

Common aberrations from the normal human plasma N-glycan profile.

Glycobiology 2010 Aug 8;20(8):970-5. Epub 2010 Apr 8.

Genos Ltd., Glycobiology Division, Planinska 1, 10000 Zagreb, Croatia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/glycob/cwq052DOI Listing
August 2010

Translational selection is ubiquitous in prokaryotes.

PLoS Genet 2010 Jun 24;6(6):e1001004. Epub 2010 Jun 24.

Division of Electronics, Rudjer Boskovic Institute, Zagreb, Croatia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pgen.1001004DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2891978PMC
June 2010

Histone modification levels are predictive for gene expression.

Proc Natl Acad Sci U S A 2010 Feb 1;107(7):2926-31. Epub 2010 Feb 1.

Max-Planck-Institut für Molekulare Genetik, Department of Computational Molecular Biology, Ihnestrasse 73, 14195 Berlin, Germany.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1073/pnas.0909344107DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2814872PMC
February 2010

Prediction of protein-protein interaction sites in sequences and 3D structures by random forests.

PLoS Comput Biol 2009 Jan 30;5(1):e1000278. Epub 2009 Jan 30.

Department of Electronic Systems and Information Processing, Faculty of Electrical Engineering and Computing, University of Zagreb, Zagreb, Croatia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pcbi.1000278DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2621338PMC
January 2009

MADNet: microarray database network web server.

Nucleic Acids Res 2008 Jul 14;36(Web Server issue):W332-5. Epub 2008 May 14.

Bioinformatics Group, Division of Biology, Faculty of Science, Zagreb University, Horvatovac 102a, 10000 Zagreb, Croatia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkn289DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2447778PMC
July 2008

PSAIA - protein structure and interaction analyzer.

BMC Struct Biol 2008 Apr 9;8:21. Epub 2008 Apr 9.

Department of Electronic Systems and Information Processing, Faculty of Electrical Engineering and Computing, University of Zagreb, Unska 3, 10000 Zagreb, Croatia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1472-6807-8-21DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2364630PMC
April 2008

Efficient recognition of folds in protein 3D structures by the improved PRIDE algorithm.

Bioinformatics 2005 Aug 24;21(15):3322-3. Epub 2005 May 24.

Bioinformatics Group, Biological Research Center, Hungarian Academy of Sciences, Temesvári krt., 62, Szeged, Hungary.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/bti513DOI Listing
August 2005

CX, DPX and PRIDE: WWW servers for the analysis and comparison of protein 3D structures.

Nucleic Acids Res 2005 Jul;33(Web Server issue):W252-4

Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, Area Science Park, 34012 Trieste, Italy.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gki362DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1160123PMC
July 2005

Comparison of codon usage measures and their applicability in prediction of microbial gene expressivity.

BMC Bioinformatics 2005 Jul 19;6:182. Epub 2005 Jul 19.

Division of Biology, Department of Molecular Biology, Faculty of Science, Zagreb University, Rooseveltov trg 6, 10000 Zagreb, Croatia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2105-6-182DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1199580PMC
July 2005

Identification and functional characterization of five novel mutant alleles in 58 Italian patients with Gaucher disease type 1.

Hum Mutat 2005 Jan;25(1):100

Unità di Malattie Metaboliche, I.R.C.C.S. Burlo Garofolo, Trieste, Laboratorio Diagnosi Pre-Postnatale Malattie Metaboliche, I.R.C.C.S.G. Gaslini, Genova and International Centre for Genetic Engineering and Biotechnology, Trieste, Italy.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1002/humu.9301DOI Listing
January 2005

The SBASE domain sequence resource, release 12: prediction of protein domain-architecture using support vector machines.

Nucleic Acids Res 2005 Jan;33(Database issue):D223-5

ICGEB-International Center for Genetic Engineering and Biotechnology, Area Science Park, 34012 Trieste, Italy.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gki112DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC540066PMC
January 2005

INCA: synonymous codon usage analysis and clustering by means of self-organizing map.

Bioinformatics 2004 Sep 1;20(14):2329-30. Epub 2004 Apr 1.

Department of Molecular Biology, Division of Biology, Faculty of Science, Zagreb University, Rooseveltov trg 6, 10000 Zagreb, Croatia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/bth238DOI Listing
September 2004

Highly reactive cysteine residues are part of the substrate binding site of mammalian dipeptidyl peptidases III.

Int J Biochem Cell Biol 2004 Mar;36(3):434-46

Department of Organic Chemistry and Biochemistry, Ruder Bosković Institute, Bijenicka 54 pp 180, 10002 Zagreb, Croatia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/s1357-2725(03)00267-xDOI Listing
March 2004

DNA analysis servers: plot.it, bend.it, model.it and IS.

Nucleic Acids Res 2003 Jul;31(13):3686-7

Protein Structure and Bioinformatics Group, International Centre for Genetic Engineering and Biotechnology, Area Science Park, 34012 Trieste, Italy.

View Article

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC168966PMC
http://dx.doi.org/10.1093/nar/gkg559DOI Listing
July 2003

The SBASE domain sequence library, release 10: domain architecture prediction.

Nucleic Acids Res 2003 Jan;31(1):403-5

ICGEB-International Center for Genetic Engineering and Biotechnology, Area Science Park, 34012 Trieste, Italy.

View Article

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC165545PMC
http://dx.doi.org/10.1093/nar/gkg098DOI Listing
January 2003

The DNA secondary structure of the Bacillus subtilis genome.

FEMS Microbiol Lett 2003 Jan;218(1):23-30

Microbiology Group, International Centre for Genetic Engineering and Biotechnology, AREA Science Park, Padriciano 99, 34012, Trieste, Italy.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1111/j.1574-6968.2003.tb11493.xDOI Listing
January 2003

The SBASE protein domain library, release 9.0: an online resource for protein domain identification.

Nucleic Acids Res 2002 Jan;30(1):273-5

International Centre for Genetic Engineering and Biotechnology, Area Science Park, 34012 Trieste, Italy.

View Article

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC99162PMC
http://dx.doi.org/10.1093/nar/30.1.273DOI Listing
January 2002