Lista de obras - Pavel V Baranov - Dominio Público Uruguay

A [Cu]rious Ribosomal Profiling Pattern Leads to the Discovery of Ribosomal Frameshifting in the Synthesis of a Copper Chaperone.

artículo científico publicado en 2017

A new technique for the characterization of long-range tertiary contacts in large RNA molecules: insertion of a photolabel at a selected position in 16S rRNA within the Escherichia coli ribosome

artículo científico publicado en 1997

A pilot study of bacterial genes with disrupted ORFs reveals a surprising profusion of protein sequence recoding mediated by ribosomal frameshifting and transcriptional realignment

artículo científico publicado en 2011

AMD1 mRNA employs ribosome stalling as a mechanism for molecular memory formation.

artículo científico publicado en 2018

ARFA: a program for annotating bacterial release factor genes, including prediction of programmed ribosomal frameshifting.

artículo científico publicado en 2006

Analysis of tetra- and hepta-nucleotides motifs promoting -1 ribosomal frameshifting in Escherichia coli

artículo científico publicado en 2014

Augmented genetic decoding: global, local and temporal alterations of decoding processes and codon meaning

artículo científico

Catch me if you can: trapping scanning ribosomes in their footsteps

artículo científico publicado en 2016

Codon size reduction as the origin of the triplet genetic code

artículo científico publicado en 2009

CodonLogo: a sequence logo-based viewer for codon patterns.

artículo científico publicado en 2012

Comparative survey of the relative impact of mRNA features on local ribosome profiling read density.

artículo científico publicado en 2016

Computational approach for calculating the probability of eukaryotic translation initiation from ribo-seq data that takes into account leaky scanning

artículo científico publicado en 2014

Computational methods for ribosome profiling data analysis

scientific article published on 24 November 2019

Darned in 2013: inclusion of model organisms and linking with Wikipedia

artículo científico publicado en 2013

Diverse bacterial genomes encode an operon of two genes, one of which is an unusual class-I release factor that potentially recognizes atypical mRNA signals other than normal stop codons

artículo científico publicado en 2006

Evaluating data integrity in ribosome footprinting datasets through modelled polysome profiles

artículo científico publicado en 2022

Evidence of efficient stop codon readthrough in four mammalian genes

artículo científico publicado en 2014

GWIPS-viz as a tool for exploring ribosome profiling evidence supporting the synthesis of alternative proteoforms

artículo científico publicado en 2015

GWIPS-viz: 2018 update.

artículo científico publicado en 2017

GWIPS-viz: development of a ribo-seq genome browser

artículo científico publicado en 2013

GeneTack database: genes with frameshifts in prokaryotic genomes and eukaryotic mRNA sequences

artículo científico publicado en 2012

Genome-Wide Changes in Protein Translation Efficiency Are Associated with Autism.

artículo científico publicado en 2018

Identification of A-to-I RNA editing: dotting the i's in the human transcriptome.

artículo científico publicado en 2011

Identification of a novel gene required for competitive growth at high temperature in the thermotolerant yeast

artículo científico publicado en 2022

Identification of evolutionarily conserved non-AUG-initiated N-terminal extensions in human coding sequences

artículo científico publicado en 2011

Identification of the nature of reading frame transitions observed in prokaryotic genomes ⬇️

artículo científico publicado el 6 de mayo de 2013

Illuminating translation with ribosome profiling spectra

artículo científico publicado en 2016

Insights into the mechanisms of eukaryotic translation gained with ribosome profiling

artículo científico publicado en 2016

Itm2a silencing rescues lamin A mediated inhibition of 3T3-L1 adipocyte differentiation.

artículo científico publicado en 2017

Low energy costs of F1Fo ATP synthase reversal in colon carcinoma cells deficient in mitochondrial complex IV.

artículo científico publicado en 2017

Molecular biology: Antibiotic re-frames decoding

artículo científico publicado en 2013

Nailing fingerprints in the stars

journal article; published in Nature on 2013-11-01

New features of 23S ribosomal RNA folding: the long helix 41-42 makes a "U-turn" inside the ribosome

artículo científico publicado en 1998

Novel Ciliate Genetic Code Variants Including the Reassignment of All Three Stop Codons to Sense Codons in Condylostoma magnum

artículo científico publicado en 2016

Observation of dually decoded regions of the human genome using ribosome profiling data

artículo científico publicado en 2012

Observation of the triplet metastable state of shallow donor pairs in AlN crystals with a negative-U behavior: a high-frequency EPR and ENDOR Study

scientific article published on 24 June 2008

Ornithine decarboxylase antizyme finder (OAF): fast and reliable detection of antizymes with frameshifts in mRNAs

artículo científico publicado en 2008

Overriding standard decoding: implications of recoding for ribosome function and enrichment of gene expression.

artículo científico publicado en 2001

Oxygen and glucose deprivation induces widespread alterations in mRNA translation within 20 minutes

artículo científico publicado en 2015

P-site tRNA is a crucial initiator of ribosomal frameshifting.

artículo científico publicado en 2004

PausePred and Rfeet: webtools for inferring ribosome pauses and visualizing footprint density from ribosome profiling data

artículo científico publicado en 2018

Position-dependent termination and widespread obligatory frameshifting in Euplotes translation.

artículo científico publicado en 2016

Positioning Europe for the EPITRANSCRIPTOMICS challenge.

artículo científico publicado en 2018

Productive mRNA stem loop-mediated transcriptional slippage: Crucial features in common with intrinsic terminators

artículo científico publicado en 2015

Programmed ribosomal frameshifting in decoding the SARS-CoV genome

artículo científico publicado en 2005

Programmed ribosomal frameshifting in the expression of the regulator of intestinal stem cell proliferation, adenomatous polyposis coli (APC).

artículo científico publicado en 2011

RECODE 2003.

artículo científico publicado en 2003

Recode-2: new design, new search tools, and many more genes

artículo científico publicado en 2010

Recoding in bacteriophages and bacterial IS elements.

artículo científico publicado en 2006

Recoding: translational bifurcations in gene expression.

artículo científico publicado en 2002

Release factor 2 frameshifting sites in different bacteria.

artículo científico publicado en 2002

Ribosomal frameshifting and transcriptional slippage: From genetic steganography and cryptography to adventitious use

artículo científico publicado en 2016

Ribosome profiling: a Hi-Def monitor for protein synthesis at the genome-wide scale

artículo científico publicado en 2013

Sequences that direct significant levels of frameshifting are frequent in coding regions of Escherichia coli.

artículo científico publicado en 2003

Specific reverse transcriptase slippage at the HIV ribosomal frameshift sequence: potential implications for modulation of GagPol synthesis

artículo científico publicado en 2017

Systematic analysis of the PTEN 5' leader identifies a major AUU initiated proteoform

artículo científico publicado en 2016

TASEP modelling provides a parsimonious explanation for the ability of a single uORF to derepress translation during the integrated stress response.

artículo científico publicado en 2018

The 3D arrangement of the 23 S and 5 S rRNA in the Escherichia coli 50 S ribosomal subunit based on a cryo-electron microscopic reconstruction at 7.5 A resolution

artículo científico publicado en 2000

The Database of Ribosomal Cross links (DRC).

artículo científico publicado en 1998

The Database of Ribosomal Cross-links: an update

artículo científico publicado en 1999

The GWIPS-viz Browser

artículo científico publicado en 2018

The distinction between recoding and codon reassignment

artículo científico publicado en 2010

The potential use of complex derivatization procedures in comprehensive HPLC-MS/MS detection of anabolic steroids.

artículo científico publicado en 2010

Thousands of human non-AUG extended proteoforms lack evidence of evolutionary selection among mammals

artículo científico publicado en 2022

Transcriptional slippage in bacteria: distribution in sequenced genomes and utilization in IS element gene expression

artículo científico publicado en 2005

Translation control of mRNAs encoding mammalian translation initiation factors.

artículo científico publicado en 2018

Translation initiation downstream from annotated start codons in human mRNAs coevolves with the Kozak context

scientific article published on 15 July 2020

Translation of 5' leaders is pervasive in genes resistant to eIF2 repression

scientific journal article

Translation: Duality in the genetic code

scientific article published in Nature

Translational recoding signals between gag and pol in diverse LTR retrotransposons.

artículo científico publicado en 2003

Trips-Viz: a transcriptome browser for exploring Ribo-Seq data

scientific article published on 01 January 2019

Trips-Viz: an environment for the analysis of public and user-generated ribosome profiling data

scientific article published on 01 July 2021

Unusually efficient CUG initiation of an overlapping reading frame in POLG mRNA yields novel protein POLGARF

scientific article published on 21 September 2020

[Directed cleavage of the 16S rRNA molecule at a single internucleotide bond]

scientific article published on 01 February 1995

eIF2α controls memory consolidation via excitatory and somatostatin neurons

artículo científico publicado en 2020

rRNA:mRNA pairing alters the length and the symmetry of mRNA-protected fragments in ribosome profiling experiments

artículo científico publicado en 2013

Lista de obras de Pavel V Baranov

A [Cu]rious Ribosomal Profiling Pattern Leads to the Discovery of Ribosomal Frameshifting in the Synthesis of a Copper Chaperone.

A new technique for the characterization of long-range tertiary contacts in large RNA molecules: insertion of a photolabel at a selected position in 16S rRNA within the Escherichia coli ribosome

A pilot study of bacterial genes with disrupted ORFs reveals a surprising profusion of protein sequence recoding mediated by ribosomal frameshifting and transcriptional realignment

AMD1 mRNA employs ribosome stalling as a mechanism for molecular memory formation.

ARFA: a program for annotating bacterial release factor genes, including prediction of programmed ribosomal frameshifting.

Analysis of tetra- and hepta-nucleotides motifs promoting -1 ribosomal frameshifting in Escherichia coli

Augmented genetic decoding: global, local and temporal alterations of decoding processes and codon meaning

Catch me if you can: trapping scanning ribosomes in their footsteps

Codon size reduction as the origin of the triplet genetic code

CodonLogo: a sequence logo-based viewer for codon patterns.

Comparative survey of the relative impact of mRNA features on local ribosome profiling read density.

Computational approach for calculating the probability of eukaryotic translation initiation from ribo-seq data that takes into account leaky scanning

Computational methods for ribosome profiling data analysis

Darned in 2013: inclusion of model organisms and linking with Wikipedia

Diverse bacterial genomes encode an operon of two genes, one of which is an unusual class-I release factor that potentially recognizes atypical mRNA signals other than normal stop codons

Evaluating data integrity in ribosome footprinting datasets through modelled polysome profiles

Evidence of efficient stop codon readthrough in four mammalian genes

GWIPS-viz as a tool for exploring ribosome profiling evidence supporting the synthesis of alternative proteoforms

GWIPS-viz: 2018 update.

GWIPS-viz: development of a ribo-seq genome browser

GeneTack database: genes with frameshifts in prokaryotic genomes and eukaryotic mRNA sequences

Genome-Wide Changes in Protein Translation Efficiency Are Associated with Autism.

Identification of A-to-I RNA editing: dotting the i's in the human transcriptome.

Identification of a novel gene required for competitive growth at high temperature in the thermotolerant yeast

Identification of evolutionarily conserved non-AUG-initiated N-terminal extensions in human coding sequences

Identification of the nature of reading frame transitions observed in prokaryotic genomes ⬇️

Illuminating translation with ribosome profiling spectra

Insights into the mechanisms of eukaryotic translation gained with ribosome profiling

Itm2a silencing rescues lamin A mediated inhibition of 3T3-L1 adipocyte differentiation.

Low energy costs of F1Fo ATP synthase reversal in colon carcinoma cells deficient in mitochondrial complex IV.

Molecular biology: Antibiotic re-frames decoding

Nailing fingerprints in the stars

New features of 23S ribosomal RNA folding: the long helix 41-42 makes a "U-turn" inside the ribosome

Novel Ciliate Genetic Code Variants Including the Reassignment of All Three Stop Codons to Sense Codons in Condylostoma magnum

Observation of dually decoded regions of the human genome using ribosome profiling data

Observation of the triplet metastable state of shallow donor pairs in AlN crystals with a negative-U behavior: a high-frequency EPR and ENDOR Study

Ornithine decarboxylase antizyme finder (OAF): fast and reliable detection of antizymes with frameshifts in mRNAs

Overriding standard decoding: implications of recoding for ribosome function and enrichment of gene expression.

Oxygen and glucose deprivation induces widespread alterations in mRNA translation within 20 minutes

P-site tRNA is a crucial initiator of ribosomal frameshifting.

PausePred and Rfeet: webtools for inferring ribosome pauses and visualizing footprint density from ribosome profiling data

Position-dependent termination and widespread obligatory frameshifting in Euplotes translation.

Positioning Europe for the EPITRANSCRIPTOMICS challenge.

Productive mRNA stem loop-mediated transcriptional slippage: Crucial features in common with intrinsic terminators

Programmed ribosomal frameshifting in decoding the SARS-CoV genome

Programmed ribosomal frameshifting in the expression of the regulator of intestinal stem cell proliferation, adenomatous polyposis coli (APC).

RECODE 2003.

Recode-2: new design, new search tools, and many more genes

Recoding in bacteriophages and bacterial IS elements.

Recoding: translational bifurcations in gene expression.

Release factor 2 frameshifting sites in different bacteria.

Ribosomal frameshifting and transcriptional slippage: From genetic steganography and cryptography to adventitious use

Ribosome profiling: a Hi-Def monitor for protein synthesis at the genome-wide scale

Sequences that direct significant levels of frameshifting are frequent in coding regions of Escherichia coli.

Specific reverse transcriptase slippage at the HIV ribosomal frameshift sequence: potential implications for modulation of GagPol synthesis

Systematic analysis of the PTEN 5' leader identifies a major AUU initiated proteoform

TASEP modelling provides a parsimonious explanation for the ability of a single uORF to derepress translation during the integrated stress response.

The 3D arrangement of the 23 S and 5 S rRNA in the Escherichia coli 50 S ribosomal subunit based on a cryo-electron microscopic reconstruction at 7.5 A resolution

The Database of Ribosomal Cross links (DRC).

The Database of Ribosomal Cross-links: an update

The GWIPS-viz Browser

The distinction between recoding and codon reassignment

The potential use of complex derivatization procedures in comprehensive HPLC-MS/MS detection of anabolic steroids.

Thousands of human non-AUG extended proteoforms lack evidence of evolutionary selection among mammals

Transcriptional slippage in bacteria: distribution in sequenced genomes and utilization in IS element gene expression

Translation control of mRNAs encoding mammalian translation initiation factors.

Translation initiation downstream from annotated start codons in human mRNAs coevolves with the Kozak context

Translation of 5' leaders is pervasive in genes resistant to eIF2 repression

Translation: Duality in the genetic code

Translational recoding signals between gag and pol in diverse LTR retrotransposons.

Trips-Viz: a transcriptome browser for exploring Ribo-Seq data

Trips-Viz: an environment for the analysis of public and user-generated ribosome profiling data

Unusually efficient CUG initiation of an overlapping reading frame in POLG mRNA yields novel protein POLGARF

[Directed cleavage of the 16S rRNA molecule at a single internucleotide bond]

eIF2α controls memory consolidation via excitatory and somatostatin neurons

rRNA:mRNA pairing alters the length and the symmetry of mRNA-protected fragments in ribosome profiling experiments