List of works - Gabriel Moreno-Hagelsieb

A new method of solution for the occupancy problem and its application to operon size prediction

scientific article published in April 2004

A powerful non-homology method for the prediction of operons in prokaryotes

scientific article published in January 2002

Analysis of 58 Families of Holins Using a Novel Program, PhyST.

scientific article published on 24 August 2016

Association of host genome with intestinal microbial composition in a large healthy cohort

scientific article

Bacterial biogeography of the human digestive tract

scientific article

Beyond the bounds of orthology: functional inference from metagenomic context

scientific article published on 23 April 2010

Characterization of the NifA-RpoN regulon in Rhizobium etli in free life and in symbiosis with Phaseolus vulgaris

scientific article published on 7 May 2010

Choosing BLAST options for better detection of orthologs as reciprocal best hits

scientific article published on 26 November 2007

Conservation of DNA curvature signals in regulatory regions of prokaryotic genes

scientific article published on December 2003

Conservation of adjacency as evidence of paralogous operons

scientific article published on 11 October 2004

Determinants of intestinal permeability in healthy first-degree relatives of individuals with Crohn's disease

scientific article published on April 2015

Draft Genome Sequence of the Biocontrol and Plant Growth-Promoting Rhizobacterium Pseudomonas fluorescens strain UM270.

scientific article published on 13 January 2016

Escherichia coli TEM1 β-lactamase in CTAB reverse micelles: exchange/diffusion-limited catalysis

scientific article published on 01 October 1999

Estimating overannotation across prokaryotic genomes using BLAST+, UBLAST, LAST and BLAT

scientific article

Evaluating bias of illumina-based bacterial 16S rRNA gene profiles

scientific article

Evaluation of thresholds for the detection of binding sites for regulatory proteins in Escherichia coli K12 DNA

scientific article

GeConT 2: gene context analysis for orthologous proteins, conserved domains and metabolic pathways.

scientific article published on 29 May 2008

Generation of Multimillion-Sequence 16S rRNA Gene Libraries from Complex Microbial Communities by Assembling Paired-End Illumina Reads

article

Generation of multimillion-sequence 16S rRNA gene libraries from complex microbial communities by assembling paired-end illumina reads

scientific article

Genetic interaction maps in Escherichia coli reveal functional crosstalk among cell envelope biogenesis pathways

scientific article

Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins

scientific article

Inferring Functional Relationships from Conservation of Gene Order

scientific article published on 01 January 2017

Inferring Functional Relationships from Conservation of Gene Order

article

Isolation and characterization of genetic variability in bacteria with β-hemolytic and antifungal activity isolated from the rhizosphere of Medicago truncatula plants

scientific article published on 4 July 2014

Meeting report: 1st international functional metagenomics workshop may 7-8, 2012, st. Jacobs, ontario, Canada

scientific article

Metagenomic annotation networks: construction and applications

scientific article

Nebulon: a system for the inference of functional relationships of gene products from the rearrangement of predicted operons

scientific article

Network-based function prediction and interactomics: the case for metabolic enzymes

scientific article published on 21 July 2010

Non-synonymous to synonymous substitutions suggest that orthologs tend to keep their functions, while paralogs are a source of functional novelty

scientific article published in 2022

Open resource metagenomics: a model for sharing metagenomic libraries

scientific article

Operon conservation from the point of view of Escherichia coli, and inference of functional interdependence of gene products from genome context.

scientific article published on January 2002

Operons and the effect of genome redundancy in deciphering functional relationships using phylogenetic profiles

scientific article published in February 2008

Operons in Escherichia coli: genomic analyses and predictions

scientific article

Phylogenetic distribution and evolutionary history of bacterial DEAD-Box proteins

scientific article published on 25 March 2011

Phylogenomic clustering for selecting non-redundant genomes for comparative genomics

scientific article published on 8 February 2013

Plant growth-promoting bacterial endophytes

scientific article

Predicting Functional Interactions Among Genes in Prokaryotes by Genomic Context.

scientific article published in January 2015

Probing teichoic acid genetics with bioactive molecules reveals new interactions among diverse processes in bacterial cell wall biogenesis.

scientific article published in May 2009

Progress in quickly finding orthologs as reciprocal best hits: comparing blast, last, diamond and MMseqs2

scientific article published on 24 October 2020

Protein engineering as a powerful tool for the chemical modification of enzymes.

scientific article published on January 1996

Quantitative genome-wide genetic interaction screens reveal global epistatic relationships of protein complexes in Escherichia coli

scientific article

Quickly finding orthologs as reciprocal best hits with BLAT, LAST, and UBLAST: how much do we miss?

scientific article

RegulonDB 11.0: Comprehensive high-throughput datasets on transcriptional regulation in Escherichia coli K-12

scientific article published in 2022

Remote homology and the functions of metagenomic dark matter.

scientific article published on 21 July 2015

Successful Lateral Transfer Requires Codon Usage Compatibility Between Foreign Genes and Recipient Genomes

article

The Transporter Classification Database (TCDB): recent advances

scientific article

The distinctive signatures of promoter regions and operon junctions across prokaryotes

scientific article

The disulfide bridges of toxin 2 from the scorpion Centruroides noxius Hoffmann and its three-dimensional structure calculated using the coordinates of variant 3 from Centruroides sculpturatus

scientific article published in June 1994

The evolutionary dynamics of functional modules and the extraordinary plasticity of regulons: the Escherichia coli perspective

scientific article published on 22 May 2012

The functional landscape bound to the transcription factors of Escherichia coli K-12.

scientific article published on 6 June 2015

The loose evolutionary relationships between transcription factors and other gene products across prokaryotes

scientific article published on 17 December 2014

The mosaic structure of the symbiotic plasmid of Rhizobium etli CFN42 and its relation to other symbiotic genome compartments

scientific article

The partitioned Rhizobium etli genome: genetic and metabolic redundancy in seven interacting replicons ⬇️

scientific article

The power of operon rearrangements for predicting functional associations

scientific article

The predominance of nucleotidyl activation in bacterial phosphonate biosynthesis

scientific article published on 16 August 2019

The pseudogenes of Mycobacterium leprae reveal the functional relevance of gene order within operons

scientific article published on 4 November 2010

The volatile organic compound dimethylhexadecylamine affects bacterial growth and swarming motility of bacteria

scientific article published on 13 December 2019

Transcription unit conservation in the three domains of life: a perspective from Escherichia coli

scientific article

Transplantation of fecal microbiota from patients with irritable bowel syndrome alters gut function and behavior in recipient mice.

scientific article published in March 2017

Understanding the evolutionary relationships and major traits of Bacillus through comparative genomics

scientific article

VIR.II: a new interface with the antibody sequences in the Kabat database

scientific article published on 01 July 2001

Whole-genome expression profiling defines the HrpL regulon of Pseudomonas syringae pv. tomato DC3000, allows de novo reconstruction of the Hrp cis clement, and identifies novel coregulated genes

scientific article

eSGA: E. coli synthetic genetic array analysis

scientific article

List of works by Gabriel Moreno-Hagelsieb

A new method of solution for the occupancy problem and its application to operon size prediction

A powerful non-homology method for the prediction of operons in prokaryotes

Analysis of 58 Families of Holins Using a Novel Program, PhyST.

Association of host genome with intestinal microbial composition in a large healthy cohort

Bacterial biogeography of the human digestive tract

Beyond the bounds of orthology: functional inference from metagenomic context

Characterization of the NifA-RpoN regulon in Rhizobium etli in free life and in symbiosis with Phaseolus vulgaris

Choosing BLAST options for better detection of orthologs as reciprocal best hits

Conservation of DNA curvature signals in regulatory regions of prokaryotic genes

Conservation of adjacency as evidence of paralogous operons

Determinants of intestinal permeability in healthy first-degree relatives of individuals with Crohn's disease

Draft Genome Sequence of the Biocontrol and Plant Growth-Promoting Rhizobacterium Pseudomonas fluorescens strain UM270.

Escherichia coli TEM1 β-lactamase in CTAB reverse micelles: exchange/diffusion-limited catalysis

Estimating overannotation across prokaryotic genomes using BLAST+, UBLAST, LAST and BLAT

Evaluating bias of illumina-based bacterial 16S rRNA gene profiles

Evaluation of thresholds for the detection of binding sites for regulatory proteins in Escherichia coli K12 DNA

GeConT 2: gene context analysis for orthologous proteins, conserved domains and metabolic pathways.

Generation of Multimillion-Sequence 16S rRNA Gene Libraries from Complex Microbial Communities by Assembling Paired-End Illumina Reads

Generation of multimillion-sequence 16S rRNA gene libraries from complex microbial communities by assembling paired-end illumina reads

Genetic interaction maps in Escherichia coli reveal functional crosstalk among cell envelope biogenesis pathways

Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins

Inferring Functional Relationships from Conservation of Gene Order

Inferring Functional Relationships from Conservation of Gene Order

Isolation and characterization of genetic variability in bacteria with β-hemolytic and antifungal activity isolated from the rhizosphere of Medicago truncatula plants

Meeting report: 1st international functional metagenomics workshop may 7-8, 2012, st. Jacobs, ontario, Canada

Metagenomic annotation networks: construction and applications

Nebulon: a system for the inference of functional relationships of gene products from the rearrangement of predicted operons

Network-based function prediction and interactomics: the case for metabolic enzymes

Non-synonymous to synonymous substitutions suggest that orthologs tend to keep their functions, while paralogs are a source of functional novelty

Open resource metagenomics: a model for sharing metagenomic libraries

Operon conservation from the point of view of Escherichia coli, and inference of functional interdependence of gene products from genome context.

Operons and the effect of genome redundancy in deciphering functional relationships using phylogenetic profiles

Operons in Escherichia coli: genomic analyses and predictions

Phylogenetic distribution and evolutionary history of bacterial DEAD-Box proteins

Phylogenomic clustering for selecting non-redundant genomes for comparative genomics

Plant growth-promoting bacterial endophytes

Predicting Functional Interactions Among Genes in Prokaryotes by Genomic Context.

Probing teichoic acid genetics with bioactive molecules reveals new interactions among diverse processes in bacterial cell wall biogenesis.

Progress in quickly finding orthologs as reciprocal best hits: comparing blast, last, diamond and MMseqs2

Protein engineering as a powerful tool for the chemical modification of enzymes.

Quantitative genome-wide genetic interaction screens reveal global epistatic relationships of protein complexes in Escherichia coli

Quickly finding orthologs as reciprocal best hits with BLAT, LAST, and UBLAST: how much do we miss?

RegulonDB 11.0: Comprehensive high-throughput datasets on transcriptional regulation in Escherichia coli K-12

Remote homology and the functions of metagenomic dark matter.

Successful Lateral Transfer Requires Codon Usage Compatibility Between Foreign Genes and Recipient Genomes

The Transporter Classification Database (TCDB): recent advances

The distinctive signatures of promoter regions and operon junctions across prokaryotes

The disulfide bridges of toxin 2 from the scorpion Centruroides noxius Hoffmann and its three-dimensional structure calculated using the coordinates of variant 3 from Centruroides sculpturatus

The evolutionary dynamics of functional modules and the extraordinary plasticity of regulons: the Escherichia coli perspective

The functional landscape bound to the transcription factors of Escherichia coli K-12.

The loose evolutionary relationships between transcription factors and other gene products across prokaryotes

The mosaic structure of the symbiotic plasmid of Rhizobium etli CFN42 and its relation to other symbiotic genome compartments

The partitioned Rhizobium etli genome: genetic and metabolic redundancy in seven interacting replicons ⬇️

The power of operon rearrangements for predicting functional associations

The predominance of nucleotidyl activation in bacterial phosphonate biosynthesis

The pseudogenes of Mycobacterium leprae reveal the functional relevance of gene order within operons

The volatile organic compound dimethylhexadecylamine affects bacterial growth and swarming motility of bacteria

Transcription unit conservation in the three domains of life: a perspective from Escherichia coli

Transplantation of fecal microbiota from patients with irritable bowel syndrome alters gut function and behavior in recipient mice.

Understanding the evolutionary relationships and major traits of Bacillus through comparative genomics

VIR.II: a new interface with the antibody sequences in the Kabat database

Whole-genome expression profiling defines the HrpL regulon of Pseudomonas syringae pv. tomato DC3000, allows de novo reconstruction of the Hrp cis clement, and identifies novel coregulated genes

eSGA: E. coli synthetic genetic array analysis