Lista de obras - Raja Mazumder - Dominio Público Uruguay

A Primer for Access to Repositories of Cancer-Related Genomic Big Data

artículo científico publicado en 2019

A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes

artículo científico publicado en 2004

A framework for application of metabolic modeling in yeast to predict the effects of nsSNV in human orthologs

artículo científico publicado en 2014

A framework for organizing cancer-related variations from existing databases, publications and NGS data using a High-performance Integrated Virtual Environment (HIVE)

artículo científico publicado en 2014

An emerging cyberinfrastructure for biodefense pathogen and pathogen-host data

artículo científico publicado en 2007

Analysis of Genomes and Transcriptomes of Hepatocellular Carcinomas Identifies Mutations and Gene Expression Changes in the Transforming Growth Factor beta Pathway Short title: Prognostic significance of TGF-β signature in liver cancer.

artículo científico publicado en 2017

Baseline human gut microbiota profile in healthy people and standard reporting template

artículo científico publicado en 2019

BioMuta and BioXpress: mutation and expression knowledgebases for cancer biomarker discovery.

artículo científico publicado en 2017

BioXpress: an integrated RNA-seq-derived gene expression database for pan-cancer analysis.

artículo científico publicado en 2015

Biocompute Objects-A Step towards Evaluation and Validation of Biomedical Scientific Computations.

artículo científico publicado en 2016

Biocuration Virtual Issue 2012

artículo científico publicado en 2012

COVID-19 Biomarkers in research: Extension of the OncoMX cancer biomarker data model to capture biomarker data from other diseases

scientific article published on 10 September 2020

Census-based rapid and accurate metagenome taxonomic profiling

artículo científico publicado en 2014

Community annotation in biology

artículo científico publicado en 2010

Comparisons of gene colinearity in genomes using GeneOrder2.0.

artículo científico publicado en 2001

Computational clustering for viral reference proteomes.

artículo científico publicado en 2016

CoreGenes: a computational tool for identifying and cataloging "core" genes in a set of small genomes

artículo científico publicado en 2002

Detection of novel members, structure-function analysis and evolutionary classification of the 2H phosphoesterase superfamily

artículo científico publicado en 2002

DiMeX: A Text Mining System for Mutation-Disease Association Extraction.

artículo científico publicado en 2016

Enabling precision medicine via standard communication of HTS provenance, analysis, and results

scientific article published on 31 December 2018

Generating a focused view of disease ontology cancer terms for pan-cancer data integration and analysis

artículo científico publicado en 2015

Germ line variants of human N-methylpurine DNA glycosylase show impaired DNA repair activity and facilitate 1,N6-ethenoadenine-induced mutations

artículo científico publicado en 2014

GlyGen data model and processing workflow

scientific article published on 23 April 2020

GlyGen: Computational and Informatics Resources for Glycoscience

artículo científico publicado en 2020

HIVE-hexagon: high-performance, parallelized sequence alignment for next-generation sequencing data analysis

artículo científico publicado en 2014

High-Performance Integrated Virtual Environment (HIVE) Tools and Applications for Big Data Analysis.

artículo científico publicado en 2014

High-performance integrated virtual environment (HIVE): a robust infrastructure for next-generation sequence data analysis.

artículo científico publicado en 2016

Human germline and pan-cancer variomes and their distinct functional profiles

artículo científico publicado en 2014

Identification of key differentially expressed MicroRNAs in cancer patients through pan-cancer analysis

artículo científico publicado en 2018

Impact of Nonsynonymous Single-Nucleotide Variations on Post-Translational Modification Sites in Human Proteins.

artículo científico publicado en 2017

Impact of germline and somatic missense variations on drug binding sites

artículo científico publicado en 2016

Investigation of somatic single nucleotide variations in human endogenous retrovirus elements and their potential association with cancer

artículo científico publicado en 2019

Loss and gain of N-linked glycosylation sequons due to single-nucleotide variation in cancer.

artículo científico publicado en 2018

MMDB: Entrez's 3D-structure database.

artículo científico publicado en 2003

Non-synonymous variations in cancer and their effects on the human proteome: workflow for NGS data biocuration and proteome-wide analysis of TCGA data

artículo científico publicado en 2014

Ongoing and future developments at the Universal Protein Resource

artículo científico publicado en 2011

Proteome-wide analysis of nonsynonymous single-nucleotide variations in active sites of human proteins.

artículo científico publicado en 2013

Proteome-wide analysis of single-nucleotide variations in the N-glycosylation sequon of human genes

artículo científico publicado en 2012

Pubcast and Genecast: Browsing and Exploring Publications and Associated Curated Content in Biology Through Mobile Devices.

artículo científico publicado en 2016

Recent advances in biocuration: meeting report from the Fifth International Biocuration Conference

artículo científico publicado en 2012

Reorganizing the protein space at the Universal Protein Resource (UniProt)

artículo científico publicado en 2012

Representative proteomes: a stable, scalable and unbiased proteome set for sequence analysis and functional annotation.

artículo científico publicado en 2011

SNVDis: a proteome-wide analysis service for evaluating nsSNVs in protein functional sites and pathways.

artículo científico publicado en 2012

Separation and assembly of deep sequencing data into discrete sub-population genomes.

artículo científico publicado en 2017

Single-nucleotide variations in cardiac arrhythmias: prospects for genomics and proteomics based biomarker discovery and diagnostics

artículo científico publicado en 2014

Structure-based comparative analysis and prediction of N-linked glycosylation sites in evolutionarily distant eukaryotes

artículo científico publicado en 2013

Structure-function analysis of hepatitis C virus envelope glycoproteins E1 and E2.

artículo científico publicado en 2014

Structure-guided comparative analysis of proteins: principles, tools, and applications for predicting function.

artículo científico publicado en 2008

Systems integration of biodefense omics data for analysis of pathogen-host interactions and identification of potential targets

artículo científico publicado en 2009

The COG database: an updated version includes eukaryotes

artículo científico publicado en 2003

The Global Cancer Genomics Consortium's Second Annual Symposium: Genomics Medicine in Cancer Research

artículo científico publicado en 2013

The Universal Protein Resource (UniProt): an expanding universe of protein information

artículo científico publicado en 2006

Trends in protein evolution inferred from sequence and structure analysis.

artículo científico publicado en 2002

UniRef: comprehensive and non-redundant UniProt reference clusters

artículo científico publicado en 2007

Whole genome single-nucleotide variation profile-based phylogenetic tree building methods for analysis of viral, bacterial and human genomes

artículo científico publicado en 2014

miCloud: A Plug-n-Play, Extensible, On-Premises Bioinformatics Cloud for Seamless Execution of Complex Next-Generation Sequencing Data Analysis Pipelines

artículo científico publicado en 2019

Lista de obras de Raja Mazumder

A Primer for Access to Repositories of Cancer-Related Genomic Big Data

A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes

A framework for application of metabolic modeling in yeast to predict the effects of nsSNV in human orthologs

A framework for organizing cancer-related variations from existing databases, publications and NGS data using a High-performance Integrated Virtual Environment (HIVE)

An emerging cyberinfrastructure for biodefense pathogen and pathogen-host data

Analysis of Genomes and Transcriptomes of Hepatocellular Carcinomas Identifies Mutations and Gene Expression Changes in the Transforming Growth Factor beta Pathway Short title: Prognostic significance of TGF-β signature in liver cancer.

Baseline human gut microbiota profile in healthy people and standard reporting template

BioMuta and BioXpress: mutation and expression knowledgebases for cancer biomarker discovery.

BioXpress: an integrated RNA-seq-derived gene expression database for pan-cancer analysis.

Biocompute Objects-A Step towards Evaluation and Validation of Biomedical Scientific Computations.

Biocuration Virtual Issue 2012

COVID-19 Biomarkers in research: Extension of the OncoMX cancer biomarker data model to capture biomarker data from other diseases

Census-based rapid and accurate metagenome taxonomic profiling

Community annotation in biology

Comparisons of gene colinearity in genomes using GeneOrder2.0.

Computational clustering for viral reference proteomes.

CoreGenes: a computational tool for identifying and cataloging "core" genes in a set of small genomes

Detection of novel members, structure-function analysis and evolutionary classification of the 2H phosphoesterase superfamily

DiMeX: A Text Mining System for Mutation-Disease Association Extraction.

Enabling precision medicine via standard communication of HTS provenance, analysis, and results

Generating a focused view of disease ontology cancer terms for pan-cancer data integration and analysis

Germ line variants of human N-methylpurine DNA glycosylase show impaired DNA repair activity and facilitate 1,N6-ethenoadenine-induced mutations

GlyGen data model and processing workflow

GlyGen: Computational and Informatics Resources for Glycoscience

HIVE-hexagon: high-performance, parallelized sequence alignment for next-generation sequencing data analysis

High-Performance Integrated Virtual Environment (HIVE) Tools and Applications for Big Data Analysis.

High-performance integrated virtual environment (HIVE): a robust infrastructure for next-generation sequence data analysis.

Human germline and pan-cancer variomes and their distinct functional profiles

Identification of key differentially expressed MicroRNAs in cancer patients through pan-cancer analysis

Impact of Nonsynonymous Single-Nucleotide Variations on Post-Translational Modification Sites in Human Proteins.

Impact of germline and somatic missense variations on drug binding sites

Investigation of somatic single nucleotide variations in human endogenous retrovirus elements and their potential association with cancer

Loss and gain of N-linked glycosylation sequons due to single-nucleotide variation in cancer.

MMDB: Entrez's 3D-structure database.

Non-synonymous variations in cancer and their effects on the human proteome: workflow for NGS data biocuration and proteome-wide analysis of TCGA data

Ongoing and future developments at the Universal Protein Resource

Proteome-wide analysis of nonsynonymous single-nucleotide variations in active sites of human proteins.

Proteome-wide analysis of single-nucleotide variations in the N-glycosylation sequon of human genes

Pubcast and Genecast: Browsing and Exploring Publications and Associated Curated Content in Biology Through Mobile Devices.

Recent advances in biocuration: meeting report from the Fifth International Biocuration Conference

Reorganizing the protein space at the Universal Protein Resource (UniProt)

Representative proteomes: a stable, scalable and unbiased proteome set for sequence analysis and functional annotation.

SNVDis: a proteome-wide analysis service for evaluating nsSNVs in protein functional sites and pathways.

Separation and assembly of deep sequencing data into discrete sub-population genomes.

Single-nucleotide variations in cardiac arrhythmias: prospects for genomics and proteomics based biomarker discovery and diagnostics

Structure-based comparative analysis and prediction of N-linked glycosylation sites in evolutionarily distant eukaryotes

Structure-function analysis of hepatitis C virus envelope glycoproteins E1 and E2.

Structure-guided comparative analysis of proteins: principles, tools, and applications for predicting function.

Systems integration of biodefense omics data for analysis of pathogen-host interactions and identification of potential targets

The COG database: an updated version includes eukaryotes

The Global Cancer Genomics Consortium's Second Annual Symposium: Genomics Medicine in Cancer Research

The Universal Protein Resource (UniProt): an expanding universe of protein information

Trends in protein evolution inferred from sequence and structure analysis.

UniRef: comprehensive and non-redundant UniProt reference clusters

Whole genome single-nucleotide variation profile-based phylogenetic tree building methods for analysis of viral, bacterial and human genomes

miCloud: A Plug-n-Play, Extensible, On-Premises Bioinformatics Cloud for Seamless Execution of Complex Next-Generation Sequencing Data Analysis Pipelines