Sander Granneman

Publications

• Hfq CLASH Uncovers SRNA-target Interaction Networks Linked to Nutrient Availability Adaptation
  ELife. May, 2020  |   Pubmed ID: 32356726
• Probing the RNA-Binding Proteome from Yeast to Man: Major Advances and Challenges
  Methods in Molecular Biology (Clifton, N.J.). 2019  |   Pubmed ID: 31602614
• Purification of Cross-linked RNA-protein Complexes by Phenol-toluol Extraction
  Nature Communications. 03, 2019  |   Pubmed ID: 30824702
• High-Resolution, High-Throughput Analysis of Hfq-Binding Sites Using UV Crosslinking and Analysis of CDNA (CRAC)
  Methods in Molecular Biology (Clifton, N.J.). 2018  |   Pubmed ID: 29484598
• An RNA-dependent Mechanism for Transient Expression of Bacterial Translocation Filaments
  Nucleic Acids Research. 04, 2018  |   Pubmed ID: 29432565
• Maturation of the 90S Pre-ribosome Requires Mrd1 Dependent U3 SnoRNA and 35S Pre-rRNA Structural Rearrangements
  Nucleic Acids Research. 04, 2018  |   Pubmed ID: 29373706
• RNA-binding Activity of TRIM25 is Mediated by Its PRY/SPRY Domain and is Required for Ubiquitination
  BMC Biology. 11, 2017  |   Pubmed ID: 29117863
• High-throughput RNA Structure Probing Reveals Critical Folding Events During Early 60S Ribosome Assembly in Yeast
  Nature Communications. 09, 2017  |   Pubmed ID: 28959008
• Specialized Box C/D SnoRNPs Act As Antisense Guides to Target RNA Base Acetylation
  PLoS Genetics. May, 2017  |   Pubmed ID: 28542199
• Kinetic CRAC Uncovers a Role for Nab3 in Determining Gene Expression Profiles During Stress
  Nature Communications. 04, 2017  |   Pubmed ID: 28400552
• Robust Statistical Modeling Improves Sensitivity of High-throughput RNA Structure Probing Experiments
  Nature Methods. 01, 2017  |   Pubmed ID: 27819660
• The Nrd1-like Protein Seb1 Coordinates Cotranscriptional 3' End Processing and Polyadenylation Site Selection
  Genes & Development. 07, 2016  |   Pubmed ID: 27401558
• Loss of the Yeast SR Protein Npl3 Alters Gene Expression Due to Transcription Readthrough
  PLoS Genetics. Dec, 2015  |   Pubmed ID: 26694144
• Transcriptome-wide RNA Processing Kinetics Revealed Using Extremely Short 4tU Labeling
  Genome Biology. Dec, 2015  |   Pubmed ID: 26679539
• Cell Populations Can Use Aneuploidy to Survive Telomerase Insufficiency
  Nature Communications. Oct, 2015  |   Pubmed ID: 26489519
• A Network of Assembly Factors is Involved in Remodeling RRNA Elements During Preribosome Maturation
  The Journal of Cell Biology. Jul, 2015  |   Pubmed ID: 26150393
• The DEAH-box Helicase Dhr1 Dissociates U3 from the Pre-rRNA to Promote Formation of the Central Pseudoknot
  PLoS Biology. Feb, 2015  |   Pubmed ID: 25710520
• A Network of Assembly Factors is Involved in Remodeling RRNA Elements During Preribosome Maturation
  The Journal of Cell Biology. Nov, 2014  |   Pubmed ID: 25404745
• Rio1 Mediates ATP-dependent Final Maturation of 40S Ribosomal Subunits
  Nucleic Acids Research. Oct, 2014  |   Pubmed ID: 25294836
• Snapshots of Pre-rRNA Structural Flexibility Reveal Eukaryotic 40S Assembly Dynamics at Nucleotide Resolution
  Nucleic Acids Research. Oct, 2014  |   Pubmed ID: 25200078
• Identification of Bacteriophage-encoded Anti-sRNAs in Pathogenic Escherichia Coli
  Molecular Cell. Jul, 2014  |   Pubmed ID: 24910100
• PAR-CLIP Data Indicate That Nrd1-Nab3-dependent Transcription Termination Regulates Expression of Hundreds of Protein Coding Genes in Yeast
  Genome Biology. Jan, 2014  |   Pubmed ID: 24393166
• Coupled GTPase and Remodelling ATPase Activities Form a Checkpoint for Ribosome Export
  Nature. Jan, 2014  |   Pubmed ID: 24240281
• Rrp5 Binding at Multiple Sites Coordinates Pre-rRNA Processing and Assembly
  Molecular Cell. Dec, 2013  |   Pubmed ID: 24239293
• Spliceosome-mediated Decay (SMD) Regulates Expression of Nonintronic Genes in Budding Yeast
  Genes & Development. Sep, 2013  |   Pubmed ID: 24065768
• Multiple RNA Interactions Position Mrd1 at the Site of the Small Subunit Pseudoknot Within the 90S Pre-ribosome
  Nucleic Acids Research. Jan, 2013  |   Pubmed ID: 23193268
• Structure of the Pre-60S Ribosomal Subunit with Nuclear Export Factor Arx1 Bound at the Exit Tunnel
  Nature Structural & Molecular Biology. Dec, 2012  |   Pubmed ID: 23142978
• Proofreading of Pre-40S Ribosome Maturation by a Translation Initiation Factor and 60S Subunits
  Nature Structural & Molecular Biology. Aug, 2012  |   Pubmed ID: 22751017
• A Cluster of Ribosome Synthesis Factors Regulate Pre-rRNA Folding and 5.8S RRNA Maturation by the Rat1 Exonuclease
  The EMBO Journal. Aug, 2011  |   Pubmed ID: 21811236
• Cross-linking, Ligation, and Sequencing of Hybrids Reveals RNA-RNA Interactions in Yeast
  Proceedings of the National Academy of Sciences of the United States of America. Jun, 2011  |   Pubmed ID: 21610164
• Box C/D SnoRNP Catalysed Methylation is Aided by Additional Pre-rRNA Base-pairing
  The EMBO Journal. May, 2011  |   Pubmed ID: 21556049
• The Nuclear RNA Polymerase II Surveillance System Targets Polymerase III Transcripts
  The EMBO Journal. May, 2011  |   Pubmed ID: 21460797
• Cracking Pre-40S Ribosomal Subunit Structure by Systematic Analyses of RNA-protein Cross-linking
  The EMBO Journal. Jun, 2010  |   Pubmed ID: 20453830
• Prp43 Bound at Different Sites on the Pre-rRNA Performs Distinct Functions in Ribosome Synthesis
  Molecular Cell. Nov, 2009  |   Pubmed ID: 19941819
• Identification of Protein Binding Sites on U3 SnoRNA and Pre-rRNA by UV Cross-linking and High-throughput Analysis of CDNAs
  Proceedings of the National Academy of Sciences of the United States of America. Jun, 2009  |   Pubmed ID: 19482942
• Building Ribosomes: Even More Expensive Than Expected?
  Current Biology : CB. Jun, 2007  |   Pubmed ID: 17550767