List of works - Nuno L Barbosa-Morais

A consensus prognostic gene expression classifier for ER positive breast cancer

scientific article published on 31 October 2006

A gene-expression signature to predict survival in breast cancer across independent data sets.

scientific article

A re-annotation pipeline for Illumina BeadArrays: improving the interpretation of gene expression data

scientific article

A variational Bayesian mixture modelling framework for cluster analysis of gene-expression data

scientific article

ASD: a bioinformatics resource on alternative splicing

scientific article

Alternative splicing: the pledge, the turn, and the prestige : The key role of alternative splicing in human biological systems

scientific article published on 03 April 2017

Androgen-dependent alternative mRNA isoform expression in prostate cancer cells

Androgen-regulated transcription of drives alternative splicing patterns in prostate cancer

scientific article published on 03 September 2019

Association of ESR1 gene tagging SNPs with breast cancer risk

scientific article published on 06 January 2009

Association of single-nucleotide polymorphisms in the cell cycle genes with breast cancer in the British population

scientific article published on 3 January 2008

Cell cycle genes are the evolutionarily conserved targets of the E2F4 transcription factor.

scientific article

Considerations for the processing and analysis of GoldenGate-based two-colour Illumina platforms.

scientific article published on 19 January 2009

Decoding a cancer-relevant splicing decision in the RON proto-oncogene using high-throughput mutagenesis

scientific article published in Nature Communications

Dissecting celastrol with machine learning to unveil dark pharmacology

scientific article published on 01 May 2019

Diversity of human U2AF splicing factors

scientific article published on 17 October 2006

Diversity of vertebrate splicing factor U2AF35: identification of alternatively spliced U2AF1 mRNAS.

scientific article published on 19 April 2004

Expansion of DUB functionality generated by alternative isoforms - USP35, a case study

scientific article published on 16 May 2018

Expression microarray reproducibility is improved by optimising purification steps in RNA amplification and labelling

scientific article

Functional evidence that Drosha overexpression in cervical squamous cell carcinoma affects cell phenotype and microRNA profiles

scientific article published on 18 May 2011

Genome-wide identification of functionally distinct subsets of cellular mRNAs associated with two nucleocytoplasmic-shuttling mammalian splicing factors

scientific article published on January 2006

High-resolution aCGH and expression profiling identifies a novel genomic subtype of ER negative breast cancer

scientific article

Interactive Alternative Splicing Analysis of Human Stem Cells Using psichomics

scientific article published on 01 January 2020

Isolation of Stool-Derived Mucus Provides a High Yield of Colonocytes Suitable for Early Detection of Colorectal Carcinoma

scientific article published on 01 July 2009

Latent regulatory potential of human-specific repetitive elements

scientific article published on 13 December 2012

MBNL proteins repress ES-cell-specific alternative splicing and reprogramming.

scientific article published on 05 June 2013

MMASS: an optimized array-based method for assessing CpG island methylation

scientific article published on 13 October 2006

MicroRNA expression profiling of human breast cancer identifies new markers of tumor subtype

scientific article

Natural product–drug conjugates for modulation of TRPV1-expressing tumors

scientific article published on 13 March 2019

Neuronal regulation of type 2 innate lymphoid cells via neuromedin U.

scientific article

New androgen receptor genomic targets show an interaction with the ETS1 transcription factor.

scientific article published on 17 August 2007

NineTeen Complex-subunit Salsa is required for efficient splicing of a subset of introns and dorsal-ventral patterning

scientific article published on 22 September 2020

Over-elongation of centrioles in cancer promotes centriole amplification and chromosome missegregation.

scientific article published on 28 March 2018

PACK: Profile Analysis using Clustering and Kurtosis to find molecular classifiers in cancer

scientific article

PTBP1-Mediated Alternative Splicing Regulates the Inflammatory Secretome and the Pro-tumorigenic Effects of Senescent Cells

scientific article published on 01 July 2018

Pan-cancer association of a centrosome amplification gene expression signature with genomic alterations and clinical outcome

article

Pediatric malignant germ cell tumors show characteristic transcriptome profiles.

scientific article published in June 2008

SIK2 is a centrosome kinase required for bipolar mitotic spindle formation that provides a potential target for therapy in ovarian cancer

scientific article

Species-specific transcription in mice carrying human chromosome 21

scientific article

Spike-in validation of an Illumina-specific variance-stabilizing transformation

scientific article

Statistical issues in the analysis of Illumina data

scientific article

Systematic genome-wide annotation of spliceosomal proteins reveals differential gene family expansion

scientific article published on 12 December 2005

The evolutionary landscape of alternative splicing in vertebrate species

scientific article

The importance of platform annotation in interpreting microarray data

article by Mark J. Dunning et al published August 2010 in Lancet Oncology Commission

The splicing factor XAB2 interacts with ERCC1-XPF and XPG for R-loop processing

scientific article published on 26 May 2021

Tissue-specific splicing factor gene expression signatures

scientific article

Trypanosoma brucei histone H1 inhibits RNA polymerase I transcription and is important for parasite fitness in vivo

scientific article published on 14 July 2014

Trypanosoma brucei metabolism is under circadian control

scientific article published on 13 March 2017

Using array-comparative genomic hybridization to define molecular portraits of primary breast cancers.

scientific article published on 25 September 2006

Widespread intron retention in mammals functionally tunes transcriptomes

scientific article

List of works by Nuno L Barbosa-Morais

A consensus prognostic gene expression classifier for ER positive breast cancer

A gene-expression signature to predict survival in breast cancer across independent data sets.

A re-annotation pipeline for Illumina BeadArrays: improving the interpretation of gene expression data

A variational Bayesian mixture modelling framework for cluster analysis of gene-expression data

ASD: a bioinformatics resource on alternative splicing

Alternative splicing: the pledge, the turn, and the prestige : The key role of alternative splicing in human biological systems

Androgen-dependent alternative mRNA isoform expression in prostate cancer cells

Androgen-regulated transcription of drives alternative splicing patterns in prostate cancer

Association of ESR1 gene tagging SNPs with breast cancer risk

Association of single-nucleotide polymorphisms in the cell cycle genes with breast cancer in the British population

Cell cycle genes are the evolutionarily conserved targets of the E2F4 transcription factor.

Considerations for the processing and analysis of GoldenGate-based two-colour Illumina platforms.

Decoding a cancer-relevant splicing decision in the RON proto-oncogene using high-throughput mutagenesis

Dissecting celastrol with machine learning to unveil dark pharmacology

Diversity of human U2AF splicing factors

Diversity of vertebrate splicing factor U2AF35: identification of alternatively spliced U2AF1 mRNAS.

Expansion of DUB functionality generated by alternative isoforms - USP35, a case study

Expression microarray reproducibility is improved by optimising purification steps in RNA amplification and labelling

Functional evidence that Drosha overexpression in cervical squamous cell carcinoma affects cell phenotype and microRNA profiles

Genome-wide identification of functionally distinct subsets of cellular mRNAs associated with two nucleocytoplasmic-shuttling mammalian splicing factors

High-resolution aCGH and expression profiling identifies a novel genomic subtype of ER negative breast cancer

Interactive Alternative Splicing Analysis of Human Stem Cells Using psichomics

Isolation of Stool-Derived Mucus Provides a High Yield of Colonocytes Suitable for Early Detection of Colorectal Carcinoma

Latent regulatory potential of human-specific repetitive elements

MBNL proteins repress ES-cell-specific alternative splicing and reprogramming.

MMASS: an optimized array-based method for assessing CpG island methylation

MicroRNA expression profiling of human breast cancer identifies new markers of tumor subtype

Natural product–drug conjugates for modulation of TRPV1-expressing tumors

Neuronal regulation of type 2 innate lymphoid cells via neuromedin U.

New androgen receptor genomic targets show an interaction with the ETS1 transcription factor.

NineTeen Complex-subunit Salsa is required for efficient splicing of a subset of introns and dorsal-ventral patterning

Over-elongation of centrioles in cancer promotes centriole amplification and chromosome missegregation.

PACK: Profile Analysis using Clustering and Kurtosis to find molecular classifiers in cancer

PTBP1-Mediated Alternative Splicing Regulates the Inflammatory Secretome and the Pro-tumorigenic Effects of Senescent Cells

Pan-cancer association of a centrosome amplification gene expression signature with genomic alterations and clinical outcome

Pediatric malignant germ cell tumors show characteristic transcriptome profiles.

SIK2 is a centrosome kinase required for bipolar mitotic spindle formation that provides a potential target for therapy in ovarian cancer

Species-specific transcription in mice carrying human chromosome 21

Spike-in validation of an Illumina-specific variance-stabilizing transformation

Statistical issues in the analysis of Illumina data

Systematic genome-wide annotation of spliceosomal proteins reveals differential gene family expansion

The evolutionary landscape of alternative splicing in vertebrate species

The importance of platform annotation in interpreting microarray data

The splicing factor XAB2 interacts with ERCC1-XPF and XPG for R-loop processing

Tissue-specific splicing factor gene expression signatures

Trypanosoma brucei histone H1 inhibits RNA polymerase I transcription and is important for parasite fitness in vivo

Trypanosoma brucei metabolism is under circadian control

Using array-comparative genomic hybridization to define molecular portraits of primary breast cancers.

Widespread intron retention in mammals functionally tunes transcriptomes

psichomics: graphical application for alternative splicing quantification and analysis