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List of works by Nikolaus Rajewsky

A Highly Conserved Circular RNA Is Required to Keep Neural Cells in a Progenitor State in the Mammalian Brain

scientific article published on 01 February 2020

A Single-Cell Transcriptome Atlas of the Mouse Glomerulus

scientific article published on 24 May 2018

A human snoRNA with microRNA-like functions

scientific article

A map of human circular RNAs in clinically relevant tissues.

scientific article published on 25 August 2017

A pancreatic islet-specific microRNA regulates insulin secretion

scientific article

A variety of dicer substrates in human and C. elegans.

scientific article published in November 2014

Analysis of intron sequences reveals hallmarks of circular RNA biogenesis in animals

scientific article published on 31 December 2014

Binding site discovery from nucleic acid sequences by discriminative learning of hidden Markov models

scientific article

Bulk and single-cell gene expression profiling of SARS-CoV-2 infected human cell lines identifies molecular targets for therapeutic intervention

scientific article published on 06 May 2020

Cell fixation and preservation for droplet-based single-cell transcriptomics

scientific article

Cell type atlas and lineage tree of a whole complex animal by single-cell transcriptomics

scientific article published on 19 April 2018

Cell-type-specific signatures of microRNAs on target mRNA expression

scholarly article

Characterization of Transcription Termination-Associated RNAs: New Insights into their Biogenesis, Tailing, and Expression in Primary Tumors.

scientific article published on 26 April 2018

Charting a tissue from single-cell transcriptomes

Circ-ZNF609 Is a Circular RNA that Can Be Translated and Functions in Myogenesis

scientific article

Circular RNAs are a large class of animal RNAs with regulatory potency ⬇️

scientific article (publication date: 21 March 2013)

Circular RNAs in the Mammalian Brain Are Highly Abundant, Conserved, and Dynamically Expressed.

scientific article published on 23 April 2015

Combinatorial microRNA target predictions

scientific article (publication date: May 2005)

Competition between target sites of regulators shapes post-transcriptional gene regulation.

scientific article published on 09 December 2014

Computational detection of genomic cis-regulatory modules applied to body patterning in the early Drosophila embryo

scientific article

Conservation of mRNA and protein expression during development of C. elegans.

scientific article published on 23 January 2014

Conservation of regulatory elements between two species of Drosophila

scientific article

Conserved functional antagonism of CELF and MBNL proteins controls stem cell-specific alternative splicing in planarians

scientific article published on 09 August 2016

Context-specific regulation of cell survival by a miRNA-controlled BIM rheostat

scientific article published on 07 November 2019

Correlating gene expression variation with cis-regulatory polymorphism in Saccharomyces cerevisiae

scientific article published on 9 September 2010

De novo assembly and validation of planaria transcriptome by massive parallel sequencing and shotgun proteomics

scientific article

Decay rates of human mRNAs: correlation with functional characteristics and sequence attributes

scientific article

Deciphering the porcine intestinal microRNA transcriptome

scientific article

Defective metabolic programming impairs early neuronal morphogenesis in neural cultures and an organoid model of Leigh syndrome

scientific article published on 26 March 2021

Discovering microRNAs from deep sequencing data using miRDeep

scientific article

DoRiNA 2.0--upgrading the doRiNA database of RNA interactions in post-transcriptional regulation

scientific article

Epigenetic dynamics of monocyte-to-macrophage differentiation

scientific article published on 29 July 2016

Epigenomic Profiling of Human CD4(+) T Cells Supports a Linear Differentiation Model and Highlights Molecular Regulators of Memory Development

scientific article published on November 2016

Establishment of gastrointestinal assembloids to study the interplay between epithelial crypts and their mesenchymal niche

scientific article published in 2023

Expression of Circ_Satb1 Is Decreased in Mesial Temporal Lobe Epilepsy and Regulates Dendritic Spine Morphology

scientific article published on 03 March 2022

Extensive identification and analysis of conserved small ORFs in animals

scientific article

FLAM-seq: full-length mRNA sequencing reveals principles of poly(A) tail length control

scientific article published on 05 August 2019

Gene expression cartography

scientific article published on 20 November 2019

Gene expression of pluripotency determinants is conserved between mammalian and planarian stem cells.

scientific article

Global characterization of the oocyte-to-embryo transition in Caenorhabditis elegans uncovers a novel mRNA clearance mechanism

scientific article

High-resolution profiling and discovery of planarian small RNAs.

scientific article published on 29 June 2009

Human muscle-derived CLEC14A-positive cells regenerate muscle independent of PAX7

scientific article published on 18 December 2019

Identification and Characterization of Circular RNAs As a New Class of Putative Biomarkers in Human Blood

scientific article published on 20 October 2015

Identification of LIN28B-bound mRNAs reveals features of target recognition and regulation.

scientific article published on 29 May 2013

Identification of proteins and miRNAs that specifically bind an mRNA in vivo

scientific article published on 16 September 2019

Identification of small ORFs in vertebrates using ribosome footprinting and evolutionary conservation.

scientific article

In vivo and transcriptome-wide identification of RNA binding protein target sites

scientific article published on December 2011

Insm1 cooperates with Neurod1 and Foxa2 to maintain mature pancreatic β-cell function

scientific article published on 31 March 2015

Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project

scientific article

Large-scale sorting of C. elegans embryos reveals the dynamics of small RNA expression

scientific article published on 06 September 2009

LifeTime and improving European healthcare through cell-based interceptive medicine

scientific article published on 07 September 2020

Loss of a mammalian circular RNA locus causes miRNA deregulation and affects brain function

scientific article published on 10 August 2017

MiR-150 Controls B Cell Differentiation by Targeting the Transcription Factor c-Myb

MicroRNA profiling of the murine hematopoietic system

scientific article

Mixed messages: Re-initiation factors regulate translation of animal mRNAs

scientific article published on 22 August 2014

Modules, networks and systems medicine for understanding disease and aiding diagnosis.

scientific article

Natural selection on human microRNA binding sites inferred from SNP data

scientific article

PAGA: graph abstraction reconciles clustering with trajectory inference through a topology preserving map of single cells

scientific article published on 19 March 2019

Paternal RNA contributions in the Caenorhabditis elegans zygote

scientific article

Paternal diet defines offspring chromatin state and intergenerational obesity

scientific article published in December 2014

Post-transcriptional Regulation by 3' UTRs Can Be Masked by Regulatory Elements in 5' UTRs.

scientific article published in March 2018

Probabilistic clustering of sequences: inferring new bacterial regulons by comparative genomics

scientific article

Publisher Correction: LifeTime and improving European healthcare through cell-based interceptive medicine

scientific article published on 17 March 2021

RCAS: an RNA centric annotation system for transcriptome-wide regions of interest

scientific article published on 21 February 2017

RNA localization is a key determinant of neurite-enriched proteome

scientific article published on 19 September 2017

RNA-binding protein RBM20 represses splicing to orchestrate cardiac pre-mRNA processing

scientific article

RNA-bioinformatics: Tools, services and databases for the analysis of RNA-based regulation

scientific article

Reexamining microRNA site accessibility in Drosophila: a population genomics study

scientific article

Roles of Long Noncoding RNAs and Circular RNAs in Translation

scientific article published on 03 June 2019

Select microRNAs are essential for early development in the sea urchin

scientific article published on 3 December 2011

Selective targeting of pro-inflammatory Th1 cells by microRNA-148a-specific antagomirs in vivo

scientific article published on 25 November 2017

Silencing of microRNAs in vivo with 'antagomirs'

scientific article (publication date: December 2005)

Single-Cell Transcriptomics Characterizes Cell Types in the Subventricular Zone and Uncovers Molecular Defects Impairing Adult Neurogenesis

scientific article published on 01 November 2018

Single-Molecule Fluorescence In Situ Hybridization (FISH) of Circular RNA CDR1as

scientific article published in January 2018

Single-cell RNA-sequencing of herpes simplex virus 1-infected cells connects NRF2 activation to an antiviral program

scientific article published on 25 October 2019

Single-cell transcriptomics reveals common epithelial response patterns in human acute kidney injury

scientific article published in 2022

Spatiotemporal m(i)RNA Architecture and 3' UTR Regulation in the C. elegans Germline

scientific article published on 08 November 2018

The CCR4-NOT complex mediates deadenylation and degradation of stem cell mRNAs and promotes planarian stem cell differentiation

scientific article (publication date: 2013)

The Drosophila embryo at single-cell transcriptome resolution.

scientific article

The Human Cell Atlas White Paper ⬇️

journal article from 'arXiv:1810.05192 [q-bio]' published in 2018

The Lupus Autoantigen La Prevents Mis-channeling of tRNA Fragments into the Human MicroRNA Pathway

scientific article published on 21 June 2016

The SNF2-like helicase HELLS mediates E2F3-dependent transcription and cellular transformation

scientific article

The Translational Landscape of the Human Heart

scientific article published on 30 May 2019

The evolution of DNA regulatory regions for proteo-gamma bacteria by interspecies comparisons

scientific article

The impact of miRNA target sites in coding sequences and in 3'UTRs

scientific article

The landscape of C. elegans 3'UTRs

scientific article

The oncogenic role of circPVT1 in head and neck squamous cell carcinoma is mediated through the mutant p53/YAP/TEAD transcription-competent complex.

scientific article published on 20 December 2017

The transcriptome dynamics of single cells during the cell cycle

scientific article published on 01 November 2020

Tracing tumorigenesis in a solid tumor model at single-cell resolution

scientific article published on 20 February 2020

Transcriptional control in the segmentation gene network of Drosophila

scientific article

Transcriptome-wide analysis of regulatory interactions of the RNA-binding protein HuR.

scientific article published on 30 June 2011

Translation of CircRNAs

scientific article

Translational regulation shapes the molecular landscape of complex disease phenotypes.

scientific article published on 26 May 2015

Unambiguous identification of miRNA:target site interactions by different types of ligation reactions

scientific article

Widespread activation of antisense transcription of the host genome during herpes simplex virus 1 infection.

scientific article published on 31 October 2017

Widespread changes in protein synthesis induced by microRNAs

scientific article (publication date: 4 September 2008)

circBase: a database for circular RNAs.

scientific article

circRNA biogenesis competes with pre-mRNA splicing.

scientific article published on 18 September 2014

doRiNA: a database of RNA interactions in post-transcriptional regulation

scientific article

miR-148a is upregulated by Twist1 and T-bet and promotes Th1-cell survival by regulating the proapoptotic gene Bim.

scientific article published on 22 January 2015

miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades

scientific article published on 12 September 2011

microRNA target predictions across seven Drosophila species and comparison to mammalian targets

scientific article

microRNAs and the Operon Paper ⬇️

scientific article published on March 21, 2011

microRNAs regulate cell-to-cell variability of endogenous target gene expression in developing mouse thymocytes.

scientific article published on 25 February 2015

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