Disciplines
Biology (65%); Medical-Theoretical Sciences, Pharmacy (35%)
Keywords
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Alternative Splicing,
RNA editing,
RNA localization,
Mirna And Sirna In Translational Control,
Non-protein coding RNA,
Epigenetic gene silencing
A focussed doctoral program on "RNA Biology" is planned within the framework of the "International PhD Program on Molecular Life Sciences at the Vienna Biocenter" which is a joint program from the Max F. Perutz Laboratories (Medical University Vienna and University Vienna), the Institute of Molecular Pathology (IMP) and two institutes form the Austrian Academy of Sciences (CeMM and IMBA). Research groups from all these institutions participate in this doctoral program ensuring an excellent coverage of research topics in the field of RNA Biology. The applying faculty participates in several national and international program projects and networks. This will support the PhD students in their research projects and career development as well as bestow them with a broad visibility. This PhD program will offer projects in many aspects of this exciting research field ranging from the problem how proper RNA folding is achieved in nature, how RNA is localized in specialized cells, how the diverse proteome of higher eukaryotes is established by alternative splicing and RNA editing, how small non-coding RNAs exert their function in regulating gene expression and genome stability and how long non-coding RNA are able to silence gene loci and whole chromosomes. The close collaboration of the research groups together with the multidisciplinary setting of the Vienna Biocenter PhD program will be of great benefit for the PhD students, for their scientific education as well as for their future careers.
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consortium member (01.06.2007 - 30.11.2021)
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consortium member (01.06.2007 - 30.11.2021)
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consortium member (01.06.2007 - 30.11.2021)
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consortium member (01.06.2007 - 30.11.2021)
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consortium member (01.06.2007 - 30.11.2021)
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consortium member (01.06.2007 - 30.11.2021)
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consortium member (01.06.2007 - 30.11.2021)
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consortium member (01.06.2007 - 30.11.2021)
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consortium member (01.06.2007 - 30.11.2021)
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consortium member (01.06.2007 - 30.11.2021)
- Universität Wien
- Institut für Molekulare Pathologie - IMP
- Gregor Mendel Institute of Molecular Plant Biology
- Universität Wien
- Universität Wien
- Universität Wien
- Medizinische Universität Wien
- Medizinische Universität Wien
- IMBA – Institut für Molekulare Biotechnologie GmbH
- Michael D. Nodine, Gregor Mendel Institute of Molecular Plant Biology , associated research partner
- Boris Görke, Universität Wien , associated research partner
- Alexander Stark, Institut für Molekulare Pathologie - IMP , associated research partner
- Julius Brennecke, IMBA – Institut für Molekulare Biotechnologie GmbH , associated research partner
Research Output
- 60982 Citations
- 360 Publications
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2024
Title The FinO/ProQ-like protein PA2582 impacts antimicrobial resistance in Pseudomonas aeruginosa DOI 10.3389/fmicb.2024.1422742 Type Journal Article Author Sesso A Journal Frontiers in Microbiology Pages 1422742 Link Publication -
2021
Title Molecular principles of Piwi-mediated cotranscriptional silencing through the dimeric SFiNX complex DOI 10.1101/gad.347989.120 Type Journal Article Author Schnabl J Journal Genes & Development Pages 392-409 Link Publication -
2021
Title The ADAR1 editome reveals drivers of editing-specificity for ADAR1-isoforms DOI 10.1101/2021.11.24.469911 Type Preprint Author Kleinova R Pages 2021.11.24.469911 Link Publication -
2021
Title Specific and Global RNA Regulators in Pseudomonas aeruginosa DOI 10.3390/ijms22168632 Type Journal Article Author Pusic P Journal International Journal of Molecular Sciences Pages 8632 Link Publication -
2021
Title Gene Expression Profiling of Pseudomonas aeruginosa Upon Exposure to Colistin and Tobramycin DOI 10.3389/fmicb.2021.626715 Type Journal Article Author Sesso A Journal Frontiers in Microbiology Pages 626715 Link Publication -
2021
Title Stabilization of Hfq-mediated translational repression by the co-repressor Crc in Pseudomonas aeruginosa DOI 10.1093/nar/gkab510 Type Journal Article Author Malecka E Journal Nucleic Acids Research Pages 7075-7087 Link Publication -
2024
Title A molecular switch orchestrates the nuclear export of human messenger RNA DOI 10.1101/2024.03.24.586400 Type Preprint Author Hohmann U Pages 2024.03.24.586400 Link Publication -
2024
Title Sampling globally and locally correct RNA 3D structures using Ernwin, SPQR and experimental SAXS data DOI 10.1093/nar/gkae602 Type Journal Article Author Thiel B Journal Nucleic Acids Research Link Publication -
2024
Title Evolutionary adaptation of an HP1-protein chromodomain integrates chromatin and DNA sequence signals DOI 10.7554/elife.93194.3 Type Journal Article Author Baumgartner L Journal eLife Link Publication -
2020
Title An internal deletion of ADAR rescued by MAVS deficiency leads to a minute phenotype DOI 10.1093/nar/gkaa025 Type Journal Article Author Bajad P Journal Nucleic Acids Research Pages 3286-3303 Link Publication -
2020
Title ADAR-deficiency perturbs the global splicing landscape in mouse tissues DOI 10.1101/gr.256933.119 Type Journal Article Author Kapoor U Journal Genome Research Link Publication -
2020
Title Distinctive Regulation of Carbapenem Susceptibility in Pseudomonas aeruginosa by Hfq DOI 10.3389/fmicb.2020.01001 Type Journal Article Author Sonnleitner E Journal Frontiers in Microbiology Pages 1001 Link Publication -
2020
Title Poly(ADP-ribose) glycohydrolase coordinates meiotic DNA double-strand break induction and repair independent of its catalytic activity DOI 10.1038/s41467-020-18693-1 Type Journal Article Author Janisiw E Journal Nature Communications Pages 4869 Link Publication -
2019
Title YBEY is an essential biogenesis factor for mitochondrial ribosomes DOI 10.1101/2019.12.13.874362 Type Preprint Author Summer S Pages 2019.12.13.874362 Link Publication -
2019
Title 3D based on 2D: Calculating helix angles and stacking patterns using forgi 2.0, an RNA Python library centered on secondary structure elements. DOI 10.12688/f1000research.18458.1 Type Journal Article Author Thiel B Journal F1000Research Link Publication -
2019
Title 3D based on 2D: Calculating helix angles and stacking patterns using forgi 2.0, an RNA Python library centered on secondary structure elements. DOI 10.12688/f1000research.18458.2 Type Journal Article Author Thiel B Journal F1000Research Link Publication -
2021
Title Targeting alternative splicing by RNAi: from the differential impact on splice variants to triggering artificial pre-mRNA splicing DOI 10.1093/nar/gkaa1260 Type Journal Article Author Fuchs A Journal Nucleic Acids Research Pages 1133-1151 Link Publication -
2021
Title A SUMO-dependent regulatory switch connects the piRNA pathway to the heterochromatin machinery in Drosophila DOI 10.1101/2021.07.27.453956 Type Preprint Author Andreev V Pages 2021.07.27.453956 Link Publication -
2021
Title Light regulates alternative splicing outcomes via the TOR kinase pathway DOI 10.1016/j.celrep.2021.109676 Type Journal Article Author Riegler S Journal Cell Reports Pages 109676 Link Publication -
2021
Title A genetic toolkit for studying transposon control in the Drosophila melanogaster ovary DOI 10.1101/2021.06.29.450424 Type Preprint Author Elmaghraby M Pages 2021.06.29.450424 Link Publication -
2025
Title Molecular basis of polyadenylated RNA fate determination in the nucleus DOI 10.1101/2025.09.16.676470 Type Preprint Author Bugai A Pages 2025.09.16.676470 Link Publication -
2025
Title An ATP-gated molecular switch orchestrates human mRNA export DOI 10.1038/s41586-025-09832-z Type Journal Article Author Hohmann U Journal Nature Pages 1-9 -
2025
Title Substrate and enzyme determinants for recognition by human mitochondrial RNase P DOI 10.1093/nar/gkaf1145 Type Journal Article Author Hazisllari E Journal Nucleic Acids Research Link Publication -
2019
Title Updated phylogeny of Chikungunya virus suggests lineage-specific RNA architecture DOI 10.1101/698522 Type Preprint Author De Bernardi Schneider A Pages 698522 Link Publication -
2019
Title The nascent RNA binding complex SFiNX licenses piRNA-guided heterochromatin formation DOI 10.1038/s41594-019-0270-6 Type Journal Article Author Batki J Journal Nature Structural & Molecular Biology Pages 720-731 Link Publication -
2019
Title A Heterochromatin-Specific RNA Export Pathway Facilitates piRNA Production DOI 10.1016/j.cell.2019.07.007 Type Journal Article Author Elmaghraby M Journal Cell Link Publication -
2019
Title VARIFI—Web-Based Automatic Variant Identification, Filtering and Annotation of Amplicon Sequencing Data DOI 10.3390/jpm9010010 Type Journal Article Author Krunic M Journal Journal of Personalized Medicine Pages 10 Link Publication -
2019
Title Dynamic Interactions Between the Genome and an Endogenous Retrovirus: Tirant in Drosophila simulans Wild-Type Strains DOI 10.1534/g3.118.200789 Type Journal Article Author Fablet M Journal G3: Genes, Genomes, Genetics Pages 855-865 Link Publication -
2019
Title Olfaction regulates organismal proteostasis and longevity via microRNA-dependent signalling DOI 10.1038/s42255-019-0033-z Type Journal Article Author Finger F Journal Nature Metabolism Pages 350-359 Link Publication -
2019
Title The embryonic transcriptome of Arabidopsis thaliana DOI 10.1007/s00497-018-00357-2 Type Journal Article Author Hofmann F Journal Plant Reproduction Pages 77-91 Link Publication -
2019
Title The nascent RNA binding complex SFiNX licenses piRNA-guided heterochromatin formation DOI 10.1101/609693 Type Preprint Author Batki J Pages 609693 Link Publication -
2019
Title MicroRNA Dynamics and Functions During Arabidopsis Embryogenesis DOI 10.1101/633735 Type Preprint Author Plotnikova A Pages 633735 Link Publication -
2019
Title Conserved Secondary Structures in Viral mRNAs DOI 10.3390/v11050401 Type Journal Article Author Kiening M Journal Viruses Pages 401 Link Publication -
2022
Title Panoramix SUMOylation on chromatin connects the piRNA pathway to the cellular heterochromatin machinery DOI 10.1038/s41594-022-00721-x Type Journal Article Author Andreev V Journal Nature Structural & Molecular Biology Pages 130-142 -
2022
Title Assembly principle of a membrane-anchored nuclear pore basket scaffold DOI 10.1126/sciadv.abl6863 Type Journal Article Author Cibulka J Journal Science Advances Link Publication -
2022
Title Insights into the secondary and tertiary structure of the Bovine Viral Diarrhea Virus Internal Ribosome Entry Site DOI 10.1080/15476286.2022.2058818 Type Journal Article Author Gosavi D Journal RNA Biology Pages 496-506 Link Publication -
2023
Title Catabolite repression control protein antagonist, a novel player in Pseudomonas aeruginosa carbon catabolite repression control DOI 10.3389/fmicb.2023.1195558 Type Journal Article Author Sonnleitner E Journal Frontiers in Microbiology Pages 1195558 Link Publication -
2023
Title The ADAR1 editome reveals drivers of editing-specificity for ADAR1-isoforms DOI 10.1093/nar/gkad265 Type Journal Article Author Kleinova R Journal Nucleic Acids Research Pages 4191-4207 Link Publication -
2023
Title 3D Feasibility of 2D RNA-RNA Interaction Paths by stepwise Folding Simulations DOI 10.1261/rna.079756.123 Type Journal Article Author Beckmann I Journal RNA Link Publication -
2023
Title RRIkinDP: Targeted RNA–RNA interaction kinetics DOI 10.1101/2023.07.28.548983 Type Preprint Author Waldl M Pages 2023.07.28.548983 Link Publication -
2023
Title Cleavage kinetics of human mitochondrial RNase P and contribution of its non-nuclease subunits DOI 10.1093/nar/gkad713 Type Journal Article Author Vilardo E Journal Nucleic Acids Research Pages 10536-10550 Link Publication -
2021
Title A genetic toolkit for studying transposon control in the Drosophila melanogaster ovary DOI 10.1093/genetics/iyab179 Type Journal Article Author Elmaghraby M Journal Genetics Link Publication -
2019
Title Insertion Pool Sequencing for Insertional Mutant Analysis in Complex Host-Microbe Interactions DOI 10.1002/cppb.20097 Type Journal Article Author Uhse S Journal Current Protocols in Plant Biology Link Publication -
2019
Title A high resolution A-to-I editing map in the mouse identifies editing events controlled by pre-mRNA splicing DOI 10.1101/gr.242636.118 Type Journal Article Author Licht K Journal Genome Research Pages 1453-1463 Link Publication -
2019
Title Time-Resolved Small RNA Sequencing Unravels the Molecular Principles of MicroRNA Homeostasis DOI 10.1016/j.molcel.2019.06.018 Type Journal Article Author Reichholf B Journal Molecular Cell Link Publication -
2019
Title STARR-seq and UMI-STARR-seq: Assessing Enhancer Activities for Genome-Wide-, High-, and Low-Complexity Candidate Libraries DOI 10.1002/cpmb.105 Type Journal Article Author Neumayr C Journal Current Protocols in Molecular Biology Link Publication -
2024
Title Evolutionary adaptation of an HP1-protein chromodomain integrates chromatin and DNA sequence signals DOI 10.7554/elife.93194 Type Journal Article Author Baumgartner L Journal eLife Link Publication -
2020
Title YBEY is an essential biogenesis factor for mitochondrial ribosomes DOI 10.1093/nar/gkaa148 Type Journal Article Author Summer S Journal Nucleic Acids Research Pages 9762-9786 Link Publication -
2020
Title Poly(ADP-ribose) glycohydrolase promotes formation and homology-directed repair of meiotic DNA double-strand breaks independent of its catalytic activity DOI 10.1101/2020.03.12.988840 Type Preprint Author Janisiw E Pages 2020.03.12.988840 Link Publication -
2020
Title Adaptor protein RapZ activates endoribonuclease RNase E by protein-protein interaction to cleave a small regulatory RNA DOI 10.1261/rna.074047.119 Type Journal Article Author Durica-Mitic S Journal RNA Link Publication -
2010
Title Nol9 is a novel polynucleotide 5'-kinase involved in ribosomal RNA processing DOI 10.1038/emboj.2010.275 Type Journal Article Author Heindl K Journal The EMBO Journal Pages 4161-4171 Link Publication -
2010
Title Evolution of metabolic networks: a computational frame-work DOI 10.1186/1759-2208-1-4 Type Journal Article Author Flamm C Journal Journal of Systems Chemistry Pages 4 Link Publication -
2010
Title Accuracy of phylogeny reconstruction methods combining overlapping gene data sets DOI 10.1186/1748-7188-5-37 Type Journal Article Author Kupczok A Journal Algorithms for Molecular Biology Pages 37 Link Publication -
2010
Title MicroRNAs prevent precocious gene expression and enable pattern formation during plant embryogenesis DOI 10.1101/gad.1986710 Type Journal Article Author Nodine M Journal Genes & Development Pages 2678-2692 Link Publication -
2010
Title MRE11 and COM1/SAE2 are required for double-strand break repair and efficient chromosome pairing during meiosis of the protist Tetrahymena DOI 10.1007/s00412-010-0274-9 Type Journal Article Author Lukaszewicz A Journal Chromosoma Pages 505-518 -
2010
Title Modules for C-terminal epitope tagging of Tetrahymena genes DOI 10.1016/j.mimet.2010.07.009 Type Journal Article Author Kataoka K Journal Journal of Microbiological Methods Pages 342-346 Link Publication -
2010
Title Target RNA–Directed Trimming and Tailing of Small Silencing RNAs DOI 10.1126/science.1187058 Type Journal Article Author Ameres S Journal Science Pages 1534-1539 Link Publication -
2010
Title ACOPHY: A Simple and General Ant Colony Optimization Approach for Phylogenetic Tree Reconstruction DOI 10.1007/978-3-642-15461-4_32 Type Book Chapter Author Dinh H Publisher Springer Nature Pages 360-367 -
2010
Title Hybridization thermodynamics of NimbleGen Microarrays DOI 10.1186/1471-2105-11-35 Type Journal Article Author Mueckstein U Journal BMC Bioinformatics Pages 35 Link Publication -
2010
Title The Tasmanian Devil Transcriptome Reveals Schwann Cell Origins of a Clonally Transmissible Cancer DOI 10.1126/science.1180616 Type Journal Article Author Murchison E Journal Science Pages 84-87 Link Publication -
2010
Title Quantitative detection and typing of hepatitis D virus in human serum by real-time polymerase chain reaction and melting curve analysis DOI 10.1016/j.diagmicrobio.2010.02.003 Type Journal Article Author Hofmann J Journal Diagnostic Microbiology and Infectious Disease Pages 172-179 -
2010
Title Genomic SELEX: A discovery tool for genomic aptamers DOI 10.1016/j.ymeth.2010.06.004 Type Journal Article Author Zimmermann B Journal Methods Pages 125-132 Link Publication -
2010
Title Random Tree-Puzzle Leads to the Yule–Harding Distribution DOI 10.1093/molbev/msq212 Type Journal Article Author Vinh L Journal Molecular Biology and Evolution Pages 873-877 Link Publication -
2010
Title Mouse MOV10L1 associates with Piwi proteins and is an essential component of the Piwi-interacting RNA (piRNA) pathway DOI 10.1073/pnas.1003953107 Type Journal Article Author Zheng K Journal Proceedings of the National Academy of Sciences Pages 11841-11846 Link Publication -
2010
Title Identification of an RNase J ortholog in Sulfolobus solfataricus: Implications for 5'-to-3' directional decay and 5'-end protection of mRNA in Crenarchaeota DOI 10.1261/rna.2418211 Type Journal Article Author Hasenöhrl D Journal RNA Pages 99-107 Link Publication -
2010
Title Genomic SELEX for Hfq-binding RNAs identifies genomic aptamers predominantly in antisense transcripts DOI 10.1093/nar/gkq032 Type Journal Article Author Lorenz C Journal Nucleic Acids Research Pages 3794-3808 Link Publication -
2010
Title Proteome diversification by adenosine to inosine RNA-editing DOI 10.4161/rna.7.2.11286 Type Journal Article Author Pullirsch D Journal RNA Biology Pages 205-212 Link Publication -
2010
Title An in vivo RNAi assay identifies major genetic and cellular requirements for primary piRNA biogenesis in Drosophila DOI 10.1038/emboj.2010.212 Type Journal Article Author Olivieri D Journal The EMBO Journal Pages 3301-3317 Link Publication -
2010
Title Editorial on alternative splicing and disease DOI 10.4161/rna.7.4.12818 Type Journal Article Author Barta A Journal RNA Biology Pages 388-389 Link Publication -
2010
Title Reaching complexity through RNA-editing DOI 10.4161/rna.7.2.11620 Type Journal Article Author Jantsch M Journal RNA Biology Pages 191-191 Link Publication -
2010
Title FACT: Functional annotation transfer between proteins with similar feature architectures DOI 10.1186/1471-2105-11-417 Type Journal Article Author Koestler T Journal BMC Bioinformatics Pages 417 Link Publication -
2010
Title Structural Basis for Assembly and Activation of the Heterotetrameric SAGA Histone H2B Deubiquitinase Module DOI 10.1016/j.cell.2010.04.026 Type Journal Article Author Köhler A Journal Cell Pages 606-617 Link Publication -
2009
Title A Phylogenomic Approach to Resolve the Basal Pterygote Divergence DOI 10.1093/molbev/msp191 Type Journal Article Author Simon S Journal Molecular Biology and Evolution Pages 2719-2730 Link Publication -
2009
Title Neuron-type specific regulation of a 3'UTR through redundant and combinatorially acting cis-regulatory elements DOI 10.1261/rna.1931510 Type Journal Article Author Didiano D Journal RNA Pages 349-363 Link Publication -
2009
Title Structural Basis for the Interaction between Yeast Spt-Ada-Gcn5 Acetyltransferase (SAGA) Complex Components Sgf11 and Sus12 DOI 10.1074/jbc.m109.070839 Type Journal Article Author Ellisdon A Journal Journal of Biological Chemistry Pages 3850-3856 Link Publication -
2009
Title Histone modifications at human enhancers reflect global cell-type-specific gene expression DOI 10.1038/nature07829 Type Journal Article Author Heintzman N Journal Nature Pages 108-112 Link Publication -
2009
Title RNA Secondary Structure Analysis Using the Vienna RNA Package DOI 10.1002/0471250953.bi1202s26 Type Journal Article Author Hofacker I Journal Current Protocols in Bioinformatics Pages 12.2.1-12.2.16 -
2009
Title An in vitro ES cell imprinting model shows that imprinted expression of the Igf2r gene arises from an allele-specific expression bias DOI 10.1242/dev.032060 Type Journal Article Author Latos P Journal Development Pages 437-448 Link Publication -
2009
Title Coherent but overlapping expression of microRNAs and their targets during vertebrate development DOI 10.1101/gad.1745709 Type Journal Article Author Shkumatava A Journal Genes & Development Pages 466-481 Link Publication -
2009
Title Loss of matKRNA editing in seed plant chloroplasts DOI 10.1186/1471-2148-9-201 Type Journal Article Author Tillich M Journal BMC Evolutionary Biology Pages 201 Link Publication -
2009
Title TonB-dependent transporters and their occurrence in cyanobacteria DOI 10.1186/1741-7007-7-68 Type Journal Article Author Mirus O Journal BMC Biology Pages 68 Link Publication -
2009
Title Evolutionarily evolved discriminators in the 3-TPR domain of the Toc64 family involved in protein translocation at the outer membrane of chloroplasts and mitochondria DOI 10.1007/s00894-008-0449-y Type Journal Article Author Mirus O Journal Journal of Molecular Modeling Pages 971 -
2009
Title Accurate Prediction of Peptide Binding Sites on Protein Surfaces DOI 10.1371/journal.pcbi.1000335 Type Journal Article Author Petsalaki E Journal PLoS Computational Biology Link Publication -
2009
Title Distribution and Phylogeny of Light-Oxygen-Voltage-Blue-Light-Signaling Proteins in the Three Kingdoms of Life DOI 10.1128/jb.00923-09 Type Journal Article Author Krauss U Journal Journal of Bacteriology Pages 7234-7242 Link Publication -
2009
Title Tetrahymena Meiotic Nuclear Reorganization Is Induced by a Checkpoint Kinase–dependent Response to DNA Damage DOI 10.1091/mbc.e08-10-1058 Type Journal Article Author Loidl J Journal Molecular Biology of the Cell Pages 2428-2437 Link Publication -
2009
Title Sus1, Cdc31, and the Sac3 CID Region Form a Conserved Interaction Platform that Promotes Nuclear Pore Association and mRNA Export DOI 10.1016/j.molcel.2009.01.033 Type Journal Article Author Jani D Journal Molecular Cell Pages 727-737 Link Publication -
2009
Title miR-29a suppresses tristetraprolin, which is a regulator of epithelial polarity and metastasis DOI 10.1038/embor.2009.9 Type Journal Article Author Gebeshuber C Journal The EMBO Reports Pages 400-405 Link Publication -
2009
Title Nucleic Acid Sequence and Structure Databases DOI 10.1007/978-1-60327-241-4_1 Type Book Chapter Author Washietl S Publisher Springer Nature Pages 3-15 -
2009
Title RNAsnoop: efficient target prediction for H/ACA snoRNAs DOI 10.1093/bioinformatics/btp680 Type Journal Article Author Tafer H Journal Bioinformatics Pages 610-616 Link Publication -
2009
Title Specialized piRNA Pathways Act in Germline and Somatic Tissues of the Drosophila Ovary DOI 10.1016/j.cell.2009.03.040 Type Journal Article Author Malone C Journal Cell Pages 522-535 Link Publication -
2009
Title Central control of fever and female body temperature by RANKL/RANK DOI 10.1038/nature08596 Type Journal Article Author Hanada R Journal Nature Pages 505-509 -
2009
Title A Toolkit and Robust Pipeline for the Generation of Fosmid-Based Reporter Genes in C. elegans DOI 10.1371/journal.pone.0004625 Type Journal Article Author Tursun B Journal PLoS ONE Link Publication -
2009
Title Comparative genomics of gene regulation—conservation and divergence of cis-regulatory information DOI 10.1016/j.gde.2009.10.006 Type Journal Article Author Meireles-Filho A Journal Current Opinion in Genetics & Development Pages 565-570 -
2009
Title Loss of the Mili-interacting Tudor domain–containing protein-1 activates transposons and alters the Mili-associated small RNA profile DOI 10.1038/nsmb.1615 Type Journal Article Author Reuter M Journal Nature Structural & Molecular Biology Pages 639-646 -
2009
Title The TLR-independent DNA recognition pathway in murine macrophages: Ligand features and molecular signature DOI 10.1002/eji.200939344 Type Journal Article Author Karayel E Journal European Journal of Immunology Pages 1929-1936 Link Publication -
2009
Title The TDRD9-MIWI2 Complex Is Essential for piRNA-Mediated Retrotransposon Silencing in the Mouse Male Germline DOI 10.1016/j.devcel.2009.10.012 Type Journal Article Author Shoji M Journal Developmental Cell Pages 775-787 Link Publication -
2009
Title HaMStR: Profile hidden markov model based search for orthologs in ESTs DOI 10.1186/1471-2148-9-157 Type Journal Article Author Ebersberger I Journal BMC Evolutionary Biology Pages 157 Link Publication -
2009
Title Ars2 and the Cap-Binding Complex Team up for Silencing DOI 10.1016/j.cell.2009.07.009 Type Journal Article Author Nielsen A Journal Cell Pages 224-226 Link Publication -
2009
Title RNA-Regulated Interaction of Transportin-1 and Exportin-5 with the Double-Stranded RNA-Binding Domain Regulates Nucleocytoplasmic Shuttling of ADAR1 DOI 10.1128/mcb.01519-08 Type Journal Article Author Fritz J Journal Molecular and Cellular Biology Pages 1487-1497 Link Publication -
2009
Title Taxon Selection under Split Diversity DOI 10.1093/sysbio/syp058 Type Journal Article Author Minh B Journal Systematic Biology Pages 586-594 Link Publication -
2009
Title Mutational Uncoupling of the Role of Sus1 in Nuclear Pore Complex Targeting of an mRNA Export Complex and Histone H2B Deubiquitination DOI 10.1074/jbc.m900502200 Type Journal Article Author Klöckner C Journal Journal of Biological Chemistry Pages 12049-12056 Link Publication -
2009
Title Processing mitochondrial (t)RNAs: New enzyme, old job DOI 10.4161/cc.8.11.8502 Type Journal Article Author Rossmanith W Journal Cell Cycle Pages 1650-1653 Link Publication -
2009
Title Genome-Wide RNAi Screen Identifies Genes Involved in Intestinal Pathogenic Bacterial Infection DOI 10.1126/science.1173164 Type Journal Article Author Cronin S Journal Science Pages 340-343 Link Publication -
2009
Title Processing of Drosophila endo-siRNAs depends on a specific Loquacious isoform DOI 10.1261/rna.1611309 Type Journal Article Author Zhou R Journal RNA Pages 1886-1895 Link Publication -
2009
Title 2'-O-methylation stabilizes Piwi-associated small RNAs and ensures DNA elimination in Tetrahymena DOI 10.1261/rna.1455509 Type Journal Article Author Kurth H Journal RNA Pages 675-685 Link Publication -
2009
Title The impact of non-coding RNAs DOI 10.1038/embor.2009.100 Type Journal Article Author Boots J Journal The EMBO Reports Pages 563-567 Link Publication -
2009
Title A functional screen implicates microRNA-138-dependent regulation of the depalmitoylation enzyme APT1 in dendritic spine morphogenesis DOI 10.1038/ncb1876 Type Journal Article Author Siegel G Journal Nature Cell Biology Pages 705-716 Link Publication -
2009
Title Translation initiation complex formation in the crenarchaeon Sulfolobus solfataricus DOI 10.1261/rna.1662609 Type Journal Article Author Hasenöhrl D Journal RNA Pages 2288-2298 Link Publication -
2009
Title Two GW Repeat Proteins Interact with Tetrahymena thermophila Argonaute and Promote Genome Rearrangement DOI 10.1128/mcb.00076-09 Type Journal Article Author Bednenko J Journal Molecular and Cellular Biology Pages 5020-5030 Link Publication -
2009
Title MicroRNAs Cross the Line: The Battle for mRNA Stability Enters the Coding Sequence DOI 10.1016/j.molcel.2009.07.006 Type Journal Article Author Nielsen A Journal Molecular Cell Pages 139-140 Link Publication -
2009
Title Translational activation of rpoS mRNA by the non-coding RNA DsrA and Hfq does not require ribosome binding DOI 10.1093/nar/gkp1125 Type Journal Article Author Vecerek B Journal Nucleic Acids Research Pages 1284-1293 Link Publication -
2009
Title tRNA recognition, processing, and disease: Hypotheses around an unorthodox type of RNase P in human mitochondria DOI 10.1016/j.mito.2009.03.008 Type Journal Article Author Holzmann J Journal Mitochondrion Pages 284-288 Link Publication -
2009
Title De novo prediction of structured RNAs from genomic sequences DOI 10.1016/j.tibtech.2009.09.006 Type Journal Article Author Gorodkin J Journal Trends in Biotechnology Pages 9-19 Link Publication -
2009
Title Learning the transcriptional regulatory code DOI 10.1038/msb.2009.88 Type Journal Article Author Stark A Journal Molecular Systems Biology Link Publication -
2008
Title Silencing and transcriptional properties of the imprinted Airn ncRNA are independent of the endogenous promoter DOI 10.1038/emboj.2008.239 Type Journal Article Author Stricker S Journal The EMBO Journal Pages 3116-3128 Link Publication -
2008
Title Site-Specific Phosphorylation Profiling of Arabidopsis Proteins by Mass Spectrometry and Peptide Chip Analysis DOI 10.1021/pr8000173 Type Journal Article Author Van Bentem S Journal Journal of Proteome Research Pages 2458-2470 -
2008
Title Translational activation by the noncoding RNA DsrA involves alternative RNase III processing in the rpoS 5'-leader DOI 10.1261/rna.603108 Type Journal Article Author Resch A Journal RNA Pages 454-459 Link Publication -
2008
Title Role of Cajal Bodies and Nucleolus in the Maturation of the U1 snRNP in Arabidopsis DOI 10.1371/journal.pone.0003989 Type Journal Article Author Lorkovic Z Journal PLoS ONE Link Publication -
2008
Title SINE RNA Induces Severe Developmental Defects in Arabidopsis thaliana and Interacts with HYL1 (DRB1), a Key Member of the DCL1 Complex DOI 10.1371/journal.pgen.1000096 Type Journal Article Author Pouch-Pélissier M Journal PLoS Genetics Link Publication -
2008
Title Identification of the human homolog of the imprinted mouse Air non-coding RNA DOI 10.1016/j.ygeno.2008.08.004 Type Journal Article Author Yotova I Journal Genomics Pages 464-473 Link Publication -
2008
Title Rooted triple consensus and anomalous gene trees DOI 10.1186/1471-2148-8-118 Type Journal Article Author Ewing G Journal BMC Evolutionary Biology Pages 118 Link Publication -
2008
Title Translation initiation factor a/eIF2(-?) counteracts 5' to 3' mRNA decay in the archaeon Sulfolobus solfataricus DOI 10.1073/pnas.0708894105 Type Journal Article Author Hasenöhrl D Journal Proceedings of the National Academy of Sciences Pages 2146-2150 Link Publication -
2008
Title Crystal Structure of the Intact Archaeal Translation Initiation Factor 2 Demonstrates Very High Conformational Flexibility in the a- and ß-Subunits DOI 10.1016/j.jmb.2008.07.039 Type Journal Article Author Stolboushkina E Journal Journal of Molecular Biology Pages 680-691 -
2008
Title Dynamic Interaction between P-Bodies and Transport Ribonucleoprotein Particles in Dendrites of Mature Hippocampal Neurons DOI 10.1523/jneurosci.0104-08.2008 Type Journal Article Author Zeitelhofer M Journal The Journal of Neuroscience Pages 7555-7562 Link Publication -
2008
Title The impact of target site accessibility on the design of effective siRNAs DOI 10.1038/nbt1404 Type Journal Article Author Tafer H Journal Nature Biotechnology Pages 578-583 -
2008
Title Specificity of ADAR-mediated RNA editing in newly identified targets DOI 10.1261/rna.923308 Type Journal Article Author Riedmann E Journal RNA Pages 1110-1118 Link Publication -
2008
Title The impact of single substitutions on multiple sequence alignments DOI 10.1098/rstb.2008.0140 Type Journal Article Author Klaere S Journal Philosophical Transactions of the Royal Society B: Biological Sciences Pages 4041-4047 Link Publication -
2008
Title Gene expression profiling for molecular distinction and characterization of laser captured primary lung cancers DOI 10.1186/1479-5876-6-69 Type Journal Article Author Rohrbeck A Journal Journal of Translational Medicine Pages 69 Link Publication -
2008
Title Budgeted Phylogenetic Diversity on Circular Split Systems DOI 10.1109/tcbb.2008.54 Type Journal Article Author Minh B Journal IEEE/ACM Transactions on Computational Biology and Bioinformatics Pages 22-29 -
2008
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2008
Title Detection of small RNAs in Pseudomonas aeruginosa by RNomics and structure-based bioinformatic tools DOI 10.1099/mic.0.2008/019703-0 Type Journal Article Author Sonnleitner E Journal Microbiology Pages 3175-3187 Link Publication -
2008
Title An Exact Algorithm for the Geodesic Distance between Phylogenetic Trees DOI 10.1089/cmb.2008.0068 Type Journal Article Author Kupczok A Journal Journal of computational biology : a journal of computational molecular cell biology Pages 577-591 Link Publication -
2008
Title An endogenous small interfering RNA pathway in Drosophila DOI 10.1038/nature07007 Type Journal Article Author Czech B Journal Nature Pages 798-802 Link Publication -
2008
Title Janus chaperones: Assistance of both RNA- and protein-folding by ribosomal proteins DOI 10.1016/j.febslet.2008.11.049 Type Journal Article Author Kovacs D Journal FEBS Letters Pages 88-92 Link Publication -
2008
Title Translational Control by RNA-RNA Interaction: Improved Computation of RNA-RNA Binding Thermodynamics DOI 10.1007/978-3-540-70600-7_9 Type Book Chapter Author Mückstein U Publisher Springer Nature Pages 114-127 -
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Title DNA double-strand breaks, but not crossovers, are required for the reorganization of meiotic nuclei in Tetrahymena DOI 10.1242/jcs.031799 Type Journal Article Author Mochizuki K Journal Journal of Cell Science Pages 2148-2158 Link Publication -
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Title Isolation of small RNA-binding proteins from E. coli: Evidence for frequent interaction of RNAs with RNA polymerase DOI 10.4161/rna.5.1.5694 Type Journal Article Author Windbichler N Journal RNA Biology Pages 30-40 Link Publication -
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Title An Epigenetic Role for Maternally Inherited piRNAs in Transposon Silencing DOI 10.1126/science.1165171 Type Journal Article Author Brennecke J Journal Science Pages 1387-1392 Link Publication -
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Title The Vienna RNA Websuite DOI 10.1093/nar/gkn188 Type Journal Article Author Gruber A Journal Nucleic Acids Research Link Publication -
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Title Invertebrate 7SK snRNAs DOI 10.1007/s00239-007-9052-6 Type Journal Article Author Gruber A Journal Journal of Molecular Evolution Pages 107-115 Link Publication -
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Title Beyond energy minimization: approaches to the kinetic folding of RNA DOI 10.1007/s00706-008-0895-3 Type Journal Article Author Flamm C Journal Monatshefte für Chemie - Chemical Monthly Pages 447-457 Link Publication -
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Title Plant SR Proteins and Their Functions DOI 10.1007/978-3-540-76776-3_5 Type Book Chapter Author Barta A Publisher Springer Nature Pages 83-102 -
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Title El Sur también existe: processing RNA in the Argentine Patagonia DOI 10.1038/embor.2008.97 Type Journal Article Author Martinez J Journal The EMBO Reports Pages 516-520 Link Publication -
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Title Knowledge Acquisition Focused Cooperative Development of Bio-ontologies – A Case Study with BIO2Me DOI 10.1007/978-3-540-70600-7_20 Type Book Chapter Author Mainz D Publisher Springer Nature Pages 258-272 -
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Title Pegylated granulocyte colony-stimulating factor mobilizes CD34+ cells with different stem and progenitor subsets and distinct functional properties in comparison with unconjugated granulocyte colony-stimulating factor DOI 10.3324/haematol.12081 Type Journal Article Author Bruns I Journal Haematologica Pages 347-355 Link Publication -
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2016
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Title An Enumerative Combinatorics Model for Fragmentation Patterns in RNA Sequencing Provides Insights into Nonuniformity of the Expected Fragment Starting-Point and Coverage Profile DOI 10.1089/cmb.2016.0096 Type Journal Article Author Prakash C Journal Journal of Computational Biology Pages 200-212 Link Publication -
2016
Title RNASeq Based Transcriptional Profiling of Pseudomonas aeruginosa PA14 after Short- and Long-Term Anoxic Cultivation in Synthetic Cystic Fibrosis Sputum Medium DOI 10.1371/journal.pone.0147811 Type Journal Article Author Tata M Journal PLOS ONE Link Publication -
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Title AtRTD2: A Reference Transcript Dataset for accurate quantification of alternative splicing and expression changes in Arabidopsis thaliana RNA-seq data DOI 10.1101/051938 Type Preprint Author Zhang R Pages 051938 Link Publication -
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Title Mutations in Cytosine-5 tRNA Methyltransferases Impact Mobile Element Expression and Genome Stability at Specific DNA Repeats DOI 10.1016/j.celrep.2018.01.061 Type Journal Article Author Genenncher B Journal Cell Reports Pages 1861-1874 Link Publication -
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Title The cyclin-dependent kinase G group defines a thermo-sensitive alternative splicing circuit modulating the expression of Arabidopsis ATU2AF65A DOI 10.1111/tpj.13914 Type Journal Article Author Cavallari N Journal The Plant Journal Pages 1010-1022 Link Publication -
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2015
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Title MUW researcher of the month DOI 10.1007/s00508-017-1292-x Type Journal Article Journal Wiener klinische Wochenschrift Pages 913-914 -
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Title Embryonic Priming of a miRNA Locus Predetermines Postmitotic Neuronal Left/Right Asymmetry in C. elegans DOI 10.1016/j.cell.2012.10.049 Type Journal Article Author Cochella L Journal Cell Pages 1229-1242 Link Publication -
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Title A Histone Deacetylase Adjusts Transcription Kinetics at Coding Sequences during Candida albicans Morphogenesis DOI 10.1371/journal.pgen.1003118 Type Journal Article Author Hnisz D Journal PLoS Genetics Link Publication -
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Title Benefit-of-doubt (BOD) scoring: A sequencing-based method for SNP candidate assessment from high to medium read number data sets DOI 10.1016/j.ygeno.2012.12.001 Type Journal Article Author Sedlazeck F Journal Genomics Pages 204-209 Link Publication -
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Title HOT regions function as patterned developmental enhancers and have a distinct cis-regulatory signature DOI 10.1101/gad.188052.112 Type Journal Article Author Kvon E Journal Genes & Development Pages 908-913 Link Publication -
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Title Adenosine deaminases that act on RNA induce reproducible changes in abundance and sequence of embryonic miRNAs DOI 10.1101/gr.133025.111 Type Journal Article Author Vesely C Journal Genome Research Pages 1468-1476 Link Publication -
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Title Identification of RNA targets for the nuclear multidomain cyclophilin atCyp59 and their effect on PPIase activity DOI 10.1093/nar/gks1252 Type Journal Article Author Bannikova O Journal Nucleic Acids Research Pages 1783-1796 Link Publication -
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Title Asymmetric Segregation of the Double-Stranded RNA Binding Protein Staufen2 during Mammalian Neural Stem Cell Divisions Promotes Lineage Progression DOI 10.1016/j.stem.2012.06.006 Type Journal Article Author Kusek G Journal Cell Stem Cell Pages 505-516 Link Publication -
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Title A subcomplex of human mitochondrial RNase P is a bifunctional methyltransferase—extensive moonlighting in mitochondrial tRNA biogenesis DOI 10.1093/nar/gks910 Type Journal Article Author Vilardo E Journal Nucleic Acids Research Pages 11583-11593 Link Publication -
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Title Forward and Reverse Genetics through Derivation of Haploid Mouse Embryonic Stem Cells DOI 10.1016/j.stem.2011.10.012 Type Journal Article Author Elling U Journal Cell Stem Cell Pages 563-574 Link Publication -
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