Lista de obras -

A New Approach for Identification of Cancer-related Pathways using Protein Networks and Genomic Data.

artículo científico publicado en 2015

A bioinformatics analysis of alternative exon usage in human genes coding for extracellular matrix proteins

artículo científico publicado en 2004

A comprehensive analysis of core polyadenylation sequences and regulation by microRNAs in a set of cancer predisposition genes

scientific article published on 21 June 2019

A comprehensive in silico expression analysis of RNA binding proteins in normal and tumor tissue: Identification of potential players in tumor formation.

artículo científico publicado en 2009

A genetic network that suppresses genome rearrangements in Saccharomyces cerevisiae and contains defects in cancers

artículo científico publicado en 2016

A genomic case study of desmoplastic small round cell tumor: comprehensive analysis reveals insights into potential therapeutic targets and development of a monitoring tool for a rare and aggressive disease.

artículo científico publicado en 2016

A possible role of exon-shuffling in the evolution of signal peptides of human proteins

artículo científico publicado en 2006

A score system for quality evaluation of RNA sequence tags: an improvement for gene expression profiling

artículo científico publicado en 2009

A tool for integrating genetic and mass spectrometry-based peptide data: Proteogenomics Viewer: PV: A genome browser-like tool, which includes MS data visualization and peptide identification parameters

artículo científico publicado en 2017

A transcript finishing initiative for closing gaps in the human transcriptome

artículo científico publicado en 2004

AMIN domains have a predicted role in localization of diverse periplasmic protein complexes.

artículo científico publicado en 2008

Alternative Spliced Transcripts as Cancer Markers ⬇️

artículo científico publicado el 1 de enero de 2001

Alternative splicing and genetic diversity: silencers are more frequently modified by SNVs associated with alternative exon/intron borders

artículo científico publicado en 2011

Alternative splicing enriched cDNA libraries identify breast cancer-associated transcripts

artículo científico publicado en 2010

Alternative splicing: a bioinformatics perspective

artículo científico publicado en 2007

An anatomy of normal and malignant gene expression

artículo científico publicado en 2002

Analysis of allelic differential expression in the human genome using allele-specific serial analysis of gene expression tags

artículo científico publicado en 2011

Analysis of the microarray gene expression for breast cancer progression after the application modified logistic regression

scientific article published on 21 November 2019

Assessment of somatic mutations in urine and plasma of Wilms tumor patients

artículo científico publicado en 2020

Automatic correspondence of tags and genes (ACTG): a tool for the analysis of SAGE, MPSS and SBS data.

artículo científico publicado en 2007

Bioinformatics Analysis of the Human Surfaceome Reveals New Targets for a Variety of Tumor Types

artículo científico publicado en 2016

Bioinformatics construction of the human cell surfaceome.

scientific article published on 15 September 2009

Building comprehensive MS-friendly databases for proteomic analysis of bacterial species of unknown genetic background

Characterization of a cancer/testis (CT) antigen gene family capable of eliciting humoral response in cancer patients

artículo científico publicado en 2006

Complex Landscape of Germline Variants in Brazilian Patients With Hereditary and Early Onset Breast Cancer.

artículo científico publicado en 2018

Definition of the gene content of the human genome: the need for deep experimental verification

artículo científico publicado en 2001

Delta-interacting protein A and the origin of hepatitis delta antigen

artículo científico publicado en 1997

Detection and evaluation of intron retention events in the human transcriptome.

artículo científico publicado en 2004

Different evolutionary strategies for the origin of caspase-1 inhibitors

artículo científico publicado en 2008

Dissecting the human spliceosome through bioinformatics and proteomics approaches

scientific article published on 01 January 2004

Distinct patterns of somatic alterations in a lymphoblastoid and a tumor genome derived from the same individual

artículo científico publicado en 2011

Distribution and linkage disequilibrium of the enhancer SNP rs5758550 among Latin American populations: influence of continental ancestry

scientific article published on 16 March 2020

Do introns favor or avoid regions of amino acid conservation?

artículo científico publicado en 2002

Domain shuffling and the increasing complexity of biological networks ⬇️

artículo científico publicado el 23 de abril de 2012

Essential Saccharomyces cerevisiae genome instability suppressing genes identify potential human tumor suppressors

artículo científico publicado en 2019

Evolutionary history of exon shuffling ⬇️

artículo científico publicado el 5 de septiembre de 2012

Exome Sequencing of Native Populations From the Amazon Reveals Patterns on the Peopling of South America

scientific article published on 29 October 2020

Exon shuffling and the origin of the mitochondrial targeting function in plant cytochrome c1 precursor

artículo científico publicado en 1996

Exploiting ESTs in human health

artículo científico publicado en 2009

Gain of transcription factor binding sites is associated to changes in the expression signature of human brain and testis and is correlated to genes with higher expression breadth

scientific article published on 22 March 2019

Gene copy-number polymorphism caused by retrotransposition in humans

artículo científico publicado en 2013

Gene expression arrays in cancer research: methods and applications

artículo científico publicado en 2005

Genome-wide identification of cancer/testis genes and their association with prognosis in a pan-cancer analysis

artículo científico publicado en 2017

High-throughput sequencing of a South American Amerindian

artículo científico publicado en 2013

Human gene discovery through experimental definition of transcribed regions of the human genome

artículo científico publicado en 2002

Identification and complete sequencing of novel human transcripts through the use of mouse orthologs and testis cDNA sequences.

artículo científico publicado en 2004

Identification of 9 novel transcripts and two RGSL genes within the hereditary prostate cancer region (HPC1) at 1q25.

artículo científico publicado en 2003

Identification of FAM46D as a novel cancer/testis antigen using EST data and serological analysis.

artículo científico publicado en 2009

Identification of NUDT15 gene variants in Amazonian Amerindians and admixed individuals from northern Brazil

scientific article published on 15 April 2020

Identification of human exons overexpressed in tumors through the use of genome and expressed sequence data

artículo científico publicado en 2005

Identification of new genes associated to senescent and tumorigenic phenotypes in mesenchymal stem cells.

artículo científico publicado en 2017

Identification of rare alternative splicing events in MS/MS data reveals a significant fraction of alternative translation initiation sites

artículo científico publicado en 2014

In silico comparison of the transcriptome derived from purified normal breast cells and breast tumor cell lines reveals candidate upregulated genes in breast tumor cells

scientific article published on 01 February 2002

Influence of BRCA1 Germline Mutations in the Somatic Mutational Burden of Triple-Negative Breast Cancer

artículo científico publicado en 2019

Insights into gliomagenesis: systems biology unravels key pathways

artículo científico publicado en 2009

Integrative annotation of 21,037 human genes validated by full-length cDNA clones

artículo científico publicado en 2004

Intron positions correlate with module boundaries in ancient proteins

artículo científico publicado en 1996

Long-range heterogeneity at the 3' ends of human mRNAs

artículo científico publicado en 2002

Modeling cancer: integration of "omics" information in dynamic systems

artículo científico publicado en 2007

Modeling tumor evolutionary dynamics ⬇️

artículo científico publicado el 14 de febrero de 2013

Mutation Detection in Tumor-Derived Cell Free DNA Anticipates Progression in a Patient With Metastatic Colorectal Cancer

article published in 2018

NFAT1 transcription factor regulates cell cycle progression and cyclin E expression in B lymphocytes

artículo científico publicado en 2016

Nineteen additional unpredicted transcripts from human chromosome 21

artículo científico publicado en 2002

ORESTES are enriched in rare exon usage variants affecting the encoded proteins

artículo científico publicado en 2003

On the Impact of the Pangenome and Annotation Discrepancies While Building Protein Sequence Databases for Bacteria Proteogenomics

scientific article published on 20 June 2019

Origin of Genes ⬇️

artículo científico publicado el 22 de julio de 1997

PVALB, a new Hürthle adenoma diagnostic marker identified through gene expression

artículo científico publicado en 2010

Populational landscape of INDELs affecting transcription factor-binding sites in humans

artículo científico publicado en 2015

Relationship between “proto-splice sites” and intron phases: Evidence from dicodon analysis ⬇️

artículo científico publicado el 6 de enero de 1998

Resveratrol decreases the expression of genes involved in inflammation through transcriptional regulation

article

S-score: a scoring system for the identification and prioritization of predicted cancer genes

artículo científico publicado en 2014

SPLOOCE: a new portal for the analysis of human splicing variants.

artículo científico publicado en 2012

Sense-antisense pairs in mammals: functional and evolutionary considerations

artículo científico publicado en 2007

Sequence features responsible for intron retention in human

artículo científico publicado en 2007

Sex-biased gene expression in the frontal cortex of common marmosets (Callithrix jacchus) and potential behavioral correlates

article

Shotgun sequencing of the human transcriptome with ORF expressed sequence tags

artículo científico publicado en 2000

Signs of ancient and modern exon-shuffling are correlated to the distribution of ancient and modern domains along proteins

artículo científico publicado en 2005

Splicing Express: a software suite for alternative splicing analysis using next-generation sequencing data

artículo científico publicado en 2015

Splicing factors are differentially expressed in tumors

scientific article published on 30 December 2004

SurfaceomeDB: a cancer-orientated database for genes encoding cell surface proteins

artículo científico publicado en 2012

Systematic detection of putative tumor suppressor genes through the combined use of exome and transcriptome sequencing

artículo científico publicado en 2010

Testing for Natural Selection in Human Exonic Splicing Regulators Associated with Evolutionary Rate Shifts ⬇️

artículo científico publicado el 26 de marzo de 2013

The FAPESP/LICR Human Cancer Genome Project: Perspectives on Integration

The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts

artículo científico publicado en 2008

The Human Anatomic Gene Expression Library (H-ANGEL), the H-Inv integrative display of human gene expression across disparate technologies and platforms

artículo científico publicado en 2005

The Yeast Splice Site Revisited: New Exon Consensus from Genomic Analysis ⬇️

artículo científico publicado el 12 de diciembre de 1997

The contribution of 700,000 ORF sequence tags to the definition of the human transcriptome.

artículo científico publicado en 2001

The correlation between introns and the three-dimensional structure of proteins ⬇️

artículo científico publicado el 31 de diciembre de 1997

The emergence of a synthetic theory of intron evolution

artículo científico publicado en 2003

The generation and utilization of a cancer-oriented representation of the human transcriptome by using expressed sequence tags

artículo científico publicado en 2003

The human cell surfaceome of breast tumors

artículo científico publicado en 2013

The impact of SNPs on the interpretation of SAGE and MPSS experimental data

artículo científico publicado en 2004

The role of exon shuffling in shaping protein-protein interaction networks

artículo científico publicado en 2010

Transcriptome-guided characterization of genomic rearrangements in a breast cancer cell line

scholarly article

Whole Genome Sequencing of the Pirarucu (Arapaima gigas) Supports Independent Emergence of Major Teleost Clades

artículo científico publicado en 2018

XPA deficiency affects the ubiquitin-proteasome system function

artículo científico publicado en 2020

neoANT-HILL: an integrated tool for identification of potential neoantigens

artículo científico publicado en 2020

Evidence of Sleep Cycle Analogous to Vertebrate SWS/REM Alternation in the Octopus ⬇️

artículo científico de 'SSRN Electronic Journal' publicado en 2020

Uncovering association networks through an eQTL analysis involving human miRNAs and lincRNAs ⬇️

artículo científico publicado en 2018

Lista de obras de

A New Approach for Identification of Cancer-related Pathways using Protein Networks and Genomic Data.

A bioinformatics analysis of alternative exon usage in human genes coding for extracellular matrix proteins

A comprehensive analysis of core polyadenylation sequences and regulation by microRNAs in a set of cancer predisposition genes

A comprehensive in silico expression analysis of RNA binding proteins in normal and tumor tissue: Identification of potential players in tumor formation.

A genetic network that suppresses genome rearrangements in Saccharomyces cerevisiae and contains defects in cancers

A genomic case study of desmoplastic small round cell tumor: comprehensive analysis reveals insights into potential therapeutic targets and development of a monitoring tool for a rare and aggressive disease.

A possible role of exon-shuffling in the evolution of signal peptides of human proteins

A score system for quality evaluation of RNA sequence tags: an improvement for gene expression profiling

A tool for integrating genetic and mass spectrometry-based peptide data: Proteogenomics Viewer: PV: A genome browser-like tool, which includes MS data visualization and peptide identification parameters

A transcript finishing initiative for closing gaps in the human transcriptome

AMIN domains have a predicted role in localization of diverse periplasmic protein complexes.

Alternative Spliced Transcripts as Cancer Markers ⬇️

Alternative splicing and genetic diversity: silencers are more frequently modified by SNVs associated with alternative exon/intron borders

Alternative splicing enriched cDNA libraries identify breast cancer-associated transcripts

Alternative splicing: a bioinformatics perspective

An anatomy of normal and malignant gene expression

Analysis of allelic differential expression in the human genome using allele-specific serial analysis of gene expression tags

Analysis of the microarray gene expression for breast cancer progression after the application modified logistic regression

Assessment of somatic mutations in urine and plasma of Wilms tumor patients

Automatic correspondence of tags and genes (ACTG): a tool for the analysis of SAGE, MPSS and SBS data.

Bioinformatics Analysis of the Human Surfaceome Reveals New Targets for a Variety of Tumor Types

Bioinformatics construction of the human cell surfaceome.

Building comprehensive MS-friendly databases for proteomic analysis of bacterial species of unknown genetic background

Characterization of a cancer/testis (CT) antigen gene family capable of eliciting humoral response in cancer patients

Complex Landscape of Germline Variants in Brazilian Patients With Hereditary and Early Onset Breast Cancer.

Definition of the gene content of the human genome: the need for deep experimental verification

Delta-interacting protein A and the origin of hepatitis delta antigen

Detection and evaluation of intron retention events in the human transcriptome.

Different evolutionary strategies for the origin of caspase-1 inhibitors

Dissecting the human spliceosome through bioinformatics and proteomics approaches

Distinct patterns of somatic alterations in a lymphoblastoid and a tumor genome derived from the same individual

Distribution and linkage disequilibrium of the enhancer SNP rs5758550 among Latin American populations: influence of continental ancestry

Do introns favor or avoid regions of amino acid conservation?

Domain shuffling and the increasing complexity of biological networks ⬇️

Essential Saccharomyces cerevisiae genome instability suppressing genes identify potential human tumor suppressors

Evolutionary history of exon shuffling ⬇️

Exome Sequencing of Native Populations From the Amazon Reveals Patterns on the Peopling of South America

Exon shuffling and the origin of the mitochondrial targeting function in plant cytochrome c1 precursor

Exploiting ESTs in human health

Gain of transcription factor binding sites is associated to changes in the expression signature of human brain and testis and is correlated to genes with higher expression breadth

Gene copy-number polymorphism caused by retrotransposition in humans

Gene expression arrays in cancer research: methods and applications

Genome-wide identification of cancer/testis genes and their association with prognosis in a pan-cancer analysis

High-throughput sequencing of a South American Amerindian

Human gene discovery through experimental definition of transcribed regions of the human genome

Identification and complete sequencing of novel human transcripts through the use of mouse orthologs and testis cDNA sequences.

Identification of 9 novel transcripts and two RGSL genes within the hereditary prostate cancer region (HPC1) at 1q25.

Identification of FAM46D as a novel cancer/testis antigen using EST data and serological analysis.

Identification of NUDT15 gene variants in Amazonian Amerindians and admixed individuals from northern Brazil

Identification of human exons overexpressed in tumors through the use of genome and expressed sequence data

Identification of new genes associated to senescent and tumorigenic phenotypes in mesenchymal stem cells.

Identification of rare alternative splicing events in MS/MS data reveals a significant fraction of alternative translation initiation sites

In silico comparison of the transcriptome derived from purified normal breast cells and breast tumor cell lines reveals candidate upregulated genes in breast tumor cells

Influence of BRCA1 Germline Mutations in the Somatic Mutational Burden of Triple-Negative Breast Cancer

Insights into gliomagenesis: systems biology unravels key pathways

Integrative annotation of 21,037 human genes validated by full-length cDNA clones

Intron positions correlate with module boundaries in ancient proteins

Long-range heterogeneity at the 3' ends of human mRNAs

Modeling cancer: integration of "omics" information in dynamic systems

Modeling tumor evolutionary dynamics ⬇️

Mutation Detection in Tumor-Derived Cell Free DNA Anticipates Progression in a Patient With Metastatic Colorectal Cancer

NFAT1 transcription factor regulates cell cycle progression and cyclin E expression in B lymphocytes

Nineteen additional unpredicted transcripts from human chromosome 21

ORESTES are enriched in rare exon usage variants affecting the encoded proteins

On the Impact of the Pangenome and Annotation Discrepancies While Building Protein Sequence Databases for Bacteria Proteogenomics

Origin of Genes ⬇️

PVALB, a new Hürthle adenoma diagnostic marker identified through gene expression

Populational landscape of INDELs affecting transcription factor-binding sites in humans

Relationship between “proto-splice sites” and intron phases: Evidence from dicodon analysis ⬇️

Resveratrol decreases the expression of genes involved in inflammation through transcriptional regulation

S-score: a scoring system for the identification and prioritization of predicted cancer genes

SPLOOCE: a new portal for the analysis of human splicing variants.

Sense-antisense pairs in mammals: functional and evolutionary considerations

Sequence features responsible for intron retention in human

Sex-biased gene expression in the frontal cortex of common marmosets (Callithrix jacchus) and potential behavioral correlates

Shotgun sequencing of the human transcriptome with ORF expressed sequence tags

Signs of ancient and modern exon-shuffling are correlated to the distribution of ancient and modern domains along proteins

Splicing Express: a software suite for alternative splicing analysis using next-generation sequencing data

Splicing factors are differentially expressed in tumors