List of works - Tomaž Curk

A systems view of spliceosomal assembly and branchpoints with iCLIP

scientific article published on 30 September 2019

An ancient germ cell-specific RNA-binding protein protects the germline from cryptic splice site poisoning

scientific article published on 24 January 2019

Analysis of CLIP and iCLIP methods for nucleotide-resolution studies of protein-RNA interactions

scientific article

Analysis of alternative splicing associated with aging and neurodegeneration in the human brain.

scientific article

Aubergine iCLIP Reveals piRNA-Dependent Decay of mRNAs Involved in Germ Cell Development in the Early Embryo

scientific article

Author Correction: A systems view of spliceosomal assembly and branchpoints with iCLIP

scientific article published on 08 July 2020

BzpF is a CREB-like transcription factor that regulates spore maturation and stability in Dictyostelium.

scientific article

CELF4 regulates translation and local abundance of a vast set of mRNAs, including genes associated with regulation of synaptic function

scientific article

Characterizing the RNA targets and position-dependent splicing regulation by TDP-43.

scientific article published on 27 February 2011

Combinations of susceptibility genes are associated with higher risk for multiple sclerosis and imply disease course specificity

scientific article published on 26 May 2015

Comprehensive Identification of RNA-Binding Domains in Human Cells.

scientific article published on 19 July 2016

Conserved developmental transcriptomes in evolutionarily divergent species.

scientific article

Control of a neuronal morphology program by an RNA-binding zinc finger protein, Unkempt

scientific article

Crosslinking-immunoprecipitation (iCLIP) analysis reveals global regulatory roles of hnRNP L.

scientific article published on 07 February 2014

Deep sequencing of virus-derived small interfering RNAs and RNA from viral particles shows highly similar mutational landscapes of a plant virus population

scientific article

Developmentally regulated DNA methylation in Dictyostelium discoideum

scientific article

Differential expression of microRNAs and other small RNAs in muscle tissue of patients with ALS and healthy age-matched controls

scientific article published on 4 April 2018

Erratum to: Insights into the design and interpretation of iCLIP experiments.

scientific article published on 15 August 2017

Exon Junction Complexes Show a Distributional Bias toward Alternatively Spliced mRNAs and against mRNAs Coding for Ribosomal Proteins.

scientific article

FASTKD2 is an RNA-binding protein required for mitochondrial RNA processing and translation

scientific article

GenePath: a system for inference of genetic networks and proposal of genetic experiments.

scientific article published in September 2003

Heterogeneous computing architecture for fast detection of SNP-SNP interactions

scientific article

High-Resolution RNA Maps Suggest Common Principles of Splicing and Polyadenylation Regulation by TDP-43.

scientific article

Identification of RNA-binding domains of RNA-binding proteins in cultured cells on a system-wide scale with RBDmap.

scientific article published on 2 November 2017

Improved binding site assignment by high-resolution mapping of RNA-protein interactions using iCLIP

scientific article published on 11 August 2015

Insights into the design and interpretation of iCLIP experiments

scientific article published on 16 January 2017

Metabolomic profiling of CHO fed-batch growth phases at 10, 100, and 1,000 L

scientific article published on 29 June 2019

Microarray data mining with visual programming.

scientific article

Orthogonal matrix factorization enables integrative analysis of multiple RNA binding proteins

scientific article published on 18 January 2016

Polygenic analysis and targeted improvement of the complex trait of high acetic acid tolerance in the yeast Saccharomyces cerevisiae.

scientific article published on 6 January 2016

Polyketide synthase genes and the natural products potential of Dictyostelium discoideum

scientific article published on 27 July 2007

Promiscuous RNA binding ensures effective encapsidation of APOBEC3 proteins by HIV-1.

scientific article

Rbfox2-coordinated alternative splicing of Mef2d and Rock2 controls myoblast fusion during myogenesis

scientific article

Recursive splicing in long vertebrate genes

scientific article

SNPsyn: detection and exploration of SNP-SNP interactions.

scientific article published on 16 May 2011

SR proteins are NXF1 adaptors that link alternative RNA processing to mRNA export.

scientific article published on March 2016

TA-clustering: cluster analysis of gene expression profiles through Temporal Abstractions.

scientific article published in August 2005

The RNA-binding landscapes of two SR proteins reveal unique functions and binding to diverse RNA classes.

scientific article

The RNA-binding protein HuR is essential for the B cell antibody response.

scientific article published on 23 February 2015

The RNA-binding proteomes from yeast to man harbour conserved enigmRBPs

scientific article published on 3 December 2015

The differential expression of alternatively polyadenylated transcripts is a common stress-induced response mechanism that modulates mammalian mRNA expression in a quantitative and qualitative fashion

scientific article published on 12 July 2016

Tia1 dependent regulation of mRNA subcellular location and translation controls p53 expression in B cells.

scientific article published on 13 September 2017

Unravelling the RNA-Binding Properties of SAFB Proteins in Breast Cancer Cells.

scientific article published on 26 July 2015

VizRank: finding informative data projections in functional genomics by machine learning.

scientific article

Widespread binding of FUS along nascent RNA regulates alternative splicing in the brain

scientific article published on 28 August 2012

Yeast Saccharomyces cerevisiae adiponectin receptor homolog Izh2 is involved in the regulation of zinc, phospholipid and pH homeostasis.

scientific article

Yeast as a cell factory: current state and perspectives.

scientific article

dictyExpress: a Dictyostelium discoideum gene expression database with an explorative data analysis web-based interface.

scientific article

iCLIP identifies novel roles for SAFB1 in regulating RNA processing and neuronal function

scientific article published on 22 December 2015

iCLIP predicts the dual splicing effects of TIA-RNA interactions.

scientific article

iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution

scientific article

iCLIP--transcriptome-wide mapping of protein-RNA interactions with individual nucleotide resolution.

scientific article

List of works by Tomaž Curk

A systems view of spliceosomal assembly and branchpoints with iCLIP

An ancient germ cell-specific RNA-binding protein protects the germline from cryptic splice site poisoning

Analysis of CLIP and iCLIP methods for nucleotide-resolution studies of protein-RNA interactions

Analysis of alternative splicing associated with aging and neurodegeneration in the human brain.

Aubergine iCLIP Reveals piRNA-Dependent Decay of mRNAs Involved in Germ Cell Development in the Early Embryo

Author Correction: A systems view of spliceosomal assembly and branchpoints with iCLIP

BzpF is a CREB-like transcription factor that regulates spore maturation and stability in Dictyostelium.

CELF4 regulates translation and local abundance of a vast set of mRNAs, including genes associated with regulation of synaptic function

Characterizing the RNA targets and position-dependent splicing regulation by TDP-43.

Combinations of susceptibility genes are associated with higher risk for multiple sclerosis and imply disease course specificity

Comprehensive Identification of RNA-Binding Domains in Human Cells.

Conserved developmental transcriptomes in evolutionarily divergent species.

Control of a neuronal morphology program by an RNA-binding zinc finger protein, Unkempt

Crosslinking-immunoprecipitation (iCLIP) analysis reveals global regulatory roles of hnRNP L.

Deep sequencing of virus-derived small interfering RNAs and RNA from viral particles shows highly similar mutational landscapes of a plant virus population

Developmentally regulated DNA methylation in Dictyostelium discoideum

Differential expression of microRNAs and other small RNAs in muscle tissue of patients with ALS and healthy age-matched controls

Erratum to: Insights into the design and interpretation of iCLIP experiments.

Exon Junction Complexes Show a Distributional Bias toward Alternatively Spliced mRNAs and against mRNAs Coding for Ribosomal Proteins.

FASTKD2 is an RNA-binding protein required for mitochondrial RNA processing and translation

GenePath: a system for inference of genetic networks and proposal of genetic experiments.

Heterogeneous computing architecture for fast detection of SNP-SNP interactions

High-Resolution RNA Maps Suggest Common Principles of Splicing and Polyadenylation Regulation by TDP-43.

Identification of RNA-binding domains of RNA-binding proteins in cultured cells on a system-wide scale with RBDmap.

Improved binding site assignment by high-resolution mapping of RNA-protein interactions using iCLIP

Insights into the design and interpretation of iCLIP experiments

Metabolomic profiling of CHO fed-batch growth phases at 10, 100, and 1,000 L

Microarray data mining with visual programming.

Orthogonal matrix factorization enables integrative analysis of multiple RNA binding proteins

Polygenic analysis and targeted improvement of the complex trait of high acetic acid tolerance in the yeast Saccharomyces cerevisiae.

Polyketide synthase genes and the natural products potential of Dictyostelium discoideum

Promiscuous RNA binding ensures effective encapsidation of APOBEC3 proteins by HIV-1.

Rbfox2-coordinated alternative splicing of Mef2d and Rock2 controls myoblast fusion during myogenesis

Recursive splicing in long vertebrate genes

SNPsyn: detection and exploration of SNP-SNP interactions.

SR proteins are NXF1 adaptors that link alternative RNA processing to mRNA export.

TA-clustering: cluster analysis of gene expression profiles through Temporal Abstractions.

The RNA-binding landscapes of two SR proteins reveal unique functions and binding to diverse RNA classes.

The RNA-binding protein HuR is essential for the B cell antibody response.

The RNA-binding proteomes from yeast to man harbour conserved enigmRBPs

The differential expression of alternatively polyadenylated transcripts is a common stress-induced response mechanism that modulates mammalian mRNA expression in a quantitative and qualitative fashion

Tia1 dependent regulation of mRNA subcellular location and translation controls p53 expression in B cells.

Unravelling the RNA-Binding Properties of SAFB Proteins in Breast Cancer Cells.

VizRank: finding informative data projections in functional genomics by machine learning.

Widespread binding of FUS along nascent RNA regulates alternative splicing in the brain

Yeast Saccharomyces cerevisiae adiponectin receptor homolog Izh2 is involved in the regulation of zinc, phospholipid and pH homeostasis.

Yeast as a cell factory: current state and perspectives.

dictyExpress: a Dictyostelium discoideum gene expression database with an explorative data analysis web-based interface.

iCLIP identifies novel roles for SAFB1 in regulating RNA processing and neuronal function

iCLIP predicts the dual splicing effects of TIA-RNA interactions.

iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution

iCLIP--transcriptome-wide mapping of protein-RNA interactions with individual nucleotide resolution.