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List of works by Nicole Cloonan

A global role for KLF1 in erythropoiesis revealed by ChIP-seq in primary erythroid cells

scientific article published on 27 May 2010

A workflow to increase verification rate of chromosomal structural rearrangements using high-throughput next-generation sequencing.

scientific article published in July 2014

Addition of interleukin-6 inhibition with tocilizumab to standard graft-versus-host disease prophylaxis after allogeneic stem-cell transplantation: a phase 1/2 trial.

scientific article published on 14 November 2014

An epigenomic roadmap to induced pluripotency reveals DNA methylation as a reprogramming modulator

scientific article

Corrigendum: Tiny RNAs associated with transcription start sites in animals

scholarly article published in Nature Genetics

Deep-transcriptome and ribonome sequencing redefines the molecular networks of pluripotency and the extracellular space in human embryonic stem cells

scientific article

Divergent reprogramming routes lead to alternative stem-cell states

scientific article

Effect of vaccination with 3 recombinant asexual-stage malaria antigens on initial growth rates of Plasmodium falciparum in non-immune volunteers

scientific article published on March 2000

Endometriosis risk alleles at 1p36.12 act through inverse regulation of CDC42 and LINC00339.

scientific article

Erratum: Corrigendum: Divergent reprogramming routes lead to alternative stem-cell states

scientific article published in Nature

Erratum: Corrigendum: Genome-wide characterization of the routes to pluripotency

scientific article published in Nature

Genome-wide characterization of the routes to pluripotency.

scientific article published on December 2014

Genomic analyses identify molecular subtypes of pancreatic cancer

scientific article published on 24 February 2016

Identification of human embryonic stem cell surface markers by combined membrane-polysome translation state array analysis and immunotranscriptional profiling

scientific article

Immunity to malaria after administration of ultra-low doses of red cells infected with Plasmodium falciparum

scientific article

Imperfect centered miRNA binding sites are common and can mediate repression of target mRNAs

scientific article

Increased inflammatory markers identified in the dorsolateral prefrontal cortex of individuals with schizophrenia

scientific article published on 7 August 2012

Integrated genome analysis suggests that most conserved non-coding sequences are regulatory factor binding sites

scientific article

International network of cancer genome projects

scientific article

Markers of inflammation in the prefrontal cortex of individuals with schizophrenia

scientific article

MicroRNA-182-5p targets a network of genes involved in DNA repair

scientific article

MicroRNAs and their isomiRs function cooperatively to target common biological pathways

scientific article

Minor class splicing shapes the zebrafish transcriptome during development

scientific article published on 10 February 2014

Pancreatic cancer genomes reveal aberrations in axon guidance pathway genes

scientific article

RAD51 135G-->C modifies breast cancer risk among BRCA2 mutation carriers: results from a combined analysis of 19 studies

scientific article published on 16 October 2007

RNA-MATE: a recursive mapping strategy for high-throughput RNA-sequencing data

scientific article

Re-thinking miRNA-mRNA interactions: intertwining issues confound target discovery

scientific article published on 12 February 2015

Recommendations for Accurate Resolution of Gene and Isoform Allele-Specific Expression in RNA-Seq Data.

scientific article

Refining transcriptional programs in kidney development by integration of deep RNA-sequencing and array-based spatial profiling

scientific article

Shutdown of HIV-1 Transcription in T Cells by Nullbasic, a Mutant Tat Protein

scientific article published on 05 July 2016

Simplifying complexity

article

SnapShot-Seq: a method for extracting genome-wide, in vivo mRNA dynamics from a single total RNA sample

scientific article

Ssb1 and Ssb2 cooperate to regulate mouse hematopoietic stem and progenitor cells by resolving replicative stress.

scientific article

Stem cell transcriptome profiling via massive-scale mRNA sequencing

scientific article

The miR-17-5p microRNA is a key regulator of the G1/S phase cell cycle transition

scientific article

The regulated retrotransposon transcriptome of mammalian cells

scientific article (publication date: May 2009)

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

scientific article

The uniqueome: a mappability resource for short-tag sequencing

scientific article

Tiny RNAs associated with transcription start sites in animals

scientific article published on 19 April 2009

Transcriptome content and dynamics at single-nucleotide resolution

scientific article

Transcriptome-wide prediction of miRNA targets in human and mouse using FASTH.

scientific article

Unique molecular profile of exosomes derived from primary human proximal tubular epithelial cells under diseased conditions.

scientific article published on 21 April 2017

Whole genomes redefine the mutational landscape of pancreatic cancer

scientific article published in February 2015

X-MATE: a flexible system for mapping short read data

scientific article

stevor and rif are Plasmodium falciparum multicopy gene families which potentially encode variant antigens

scientific article published on November 1998

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