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List of works by Michiel Jl de Hoon

A comprehensive survey of 3' animal miRNA modification events and a possible role for 3' adenylation in modulating miRNA targeting effectiveness

scientific article

A field guide to cultivating computational biology

scientific article published on 08 October 2021

A promoter-level mammalian expression atlas

scientific article

An atlas of human long non-coding RNAs with accurate 5' ends.

scientific article

Batf2/Irf1 induces inflammatory responses in classically activated macrophages, lipopolysaccharides, and mycobacterial infection

scientific article

Comparative transcriptomics of primary cells in vertebrates

scientific article published on 27 July 2020

Comparison of RNA- or LNA-hybrid oligonucleotides in template-switching reactions for high-speed sequencing library preparation

scientific article

Cross-mapping and the identification of editing sites in mature microRNAs in high-throughput sequencing libraries

scientific article

Effect of Thiazole Orange Doubly Labeled Thymidine on DNA Duplex Formation ⬇️

scientific article published on July 25, 2012

FANTOM enters 20th year: expansion of transcriptomic atlases and functional annotation of non-coding RNAs

scientific article published on 19 November 2020

FANTOM4 EdgeExpressDB: an integrated database of promoters, genes, microRNAs, expression dynamics and regulatory interactions

scientific article published on 19 April 2009

Functional annotation of human long noncoding RNAs via molecular phenotyping

scientific article published on 27 July 2020

Gateways to the FANTOM5 promoter level mammalian expression atlas

scientific article

Hierarchical Evolution of the Bacterial Sporulation Network ⬇️

scientific article published on September 14, 2010

Identification of ZNF395 as a novel modulator of adipogenesis ⬇️

scientific article published on November 7, 2012

Integration of genetics and miRNA-target gene network identified disease biology implicated in tissue specificity

article

Optimization of turn-back primers in isothermal amplification

scientific article published on 9 February 2011

PAPD5-mediated 3' adenylation and subsequent degradation of miR-21 is disrupted in proliferative disease.

scientific article

Probabilistic resolution of multi-mapping reads in massively parallel sequencing data using MuMRescueLite

scientific article

Promoter Usage and Dynamics in Vascular Smooth Muscle Cells Exposed to Fibroblast Growth Factor-2 or Interleukin-1β

scientific article published in Scientific Reports

Recent advances in functional genome analysis

scientific article published on 21 December 2018

Reconstruction of Monocyte Transcriptional Regulatory Network Accompanies Monocytic Functions in Human Fibroblasts ⬇️

scientific article published on March 13, 2012

Recounting the FANTOM CAGEAssociated Transcriptome

scientific article published on 20 February 2020

Redefining the transcriptional regulatory dynamics of classically and alternatively activated macrophages by deepCAGE transcriptomics.

scientific article

Systemic identification of estrogen-regulated genes in breast cancer cells through cap analysis of gene expression mapping

scientific article published on 16 April 2014

Temporal dynamics and transcriptional control using single-cell gene expression analysis

scientific article

The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line.

scientific article

Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells

scientific article

Transcriptome analysis of controlled and therapy-resistant childhood asthma reveals distinct gene expression profiles.

scientific article published on 9 April 2015

Update of the FANTOM web resource: expansion to provide additional transcriptome atlases

scientific article published on 01 January 2019

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