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List of works by Igor B. Rogozin

A DNA repair system specific for thermophilic Archaea and bacteria predicted by genomic context analysis ⬇️

scientific article published on January 15, 2002

A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes

scientific article

A detailed history of intron-rich eukaryotic ancestors inferred from a global survey of 100 complete genomes

scientific article

A dual origin of the Xist gene from a protein-coding gene and a set of transposable elements

scientific article

A glimpse of a putative pre-intron phase of eukaryotic evolution

scientific article

A highly conserved family of inactivated archaeal B family DNA polymerases

scientific article published on 6 August 2008

A late origin of the extant eukaryotic diversity: divergence time estimates using rare genomic changes

scientific article

A maximum likelihood method for reconstruction of the evolution of eukaryotic gene structure

scientific article

A novel subfamily of LINE-derived elements in mice.

scientific article published on November 1998

A significant fraction of conserved noncoding DNA in human and mouse consists of predicted matrix attachment regions

scientific article

AID/APOBEC cytosine deaminase induces genome-wide kataegis ⬇️

scientific article published on December 18, 2012

Accumulation of GC donor splice signals in mammals

scientific article published on 9 July 2008

Activation induced deaminase mutational signature overlaps with CpG methylation sites in follicular lymphoma and other cancers

scientific article

Analysis of donor splice sites in different eukaryotic organisms ⬇️

scientific article published on July 1, 1997

Analysis of evolution of exon-intron structure of eukaryotic genes

scientific article

Analysis of mitochondrial DNA somatic mutations in OXYS and Wistar strain rats

scientific article published in April 2009

Analysis of phylogenetically reconstructed mutational spectra in human mitochondrial DNA control region

scientific article

Analysis of rare amino acid replacements supports the Coelomata clade

scientific article published on 5 October 2007

B2 elements present in the human genome

scientific article published in February 2000

B2-like repetitive sequence from the X chromosome of the American mink (Mustela vison).

scientific article published in January 1991

Characterization of the genomic Xist locus in rodents reveals conservation of overall gene structure and tandem repeats but rapid evolution of unique sequence

scientific article (publication date: May 2001)

Cloning and functional analysis of SEL1L promoter region, a pancreas-specific gene.

scientific article

Cloning of human centromeres by transformation-associated recombination in yeast and generation of functional human artificial chromosomes.

scientific article

Coelomata and not Ecdysozoa: evidence from genome-wide phylogenetic analysis

scientific article published in January 2004

Comment on "A commensal strain of Staphylococcus epidermidis protects against skin neoplasia" by Nakatsuji et al

scientific article published on 11 September 2019

Comparative analysis of orthologous eukaryotic mRNAs: potential hidden functional signals

scientific article published on 18 March 2004

Comparative mutational analyses of influenza A viruses

scientific article

Comparative study and prediction of DNA fragments associated with various elements of the nuclear matrix.

scientific article published on February 2001

Compensatory relationship between splice sites and exonic splicing signals depending on the length of vertebrate introns

scientific article published on 8 December 2006

Completion of the mapping of transcription start sites for the five-gene block subgenomic RNAs of Beet yellows Closterovirus and identification of putative subgenomic promoters

scientific article published on 22 May 2007

Computational Prediction of Polycomb-Associated Long Non-Coding RNAs ⬇️

scientific article published on September 13, 2012

Computational approaches for the analysis of gene neighbourhoods in prokaryotic genomes

scientific article published in June 2004

Concerted changes in the nucleotide sequences of the intragenic promoter regions of eukaryotic genes for tRNAs of all specificities.

scientific article

Congruent evolution of different classes of non-coding DNA in prokaryotic genomes

scientific article

Connected gene neighborhoods in prokaryotic genomes

scientific article

Conservation of the Exon-Intron Structure of Long Intergenic Non-Coding RNA Genes in Eutherian Mammals

scientific article

Conservation versus parallel gains in intron evolution

scientific article

Conservation versus parallel gains in intron evolution

scientific article (published 2005-09-25)

Context of deletions and insertions in human coding sequences.

scientific article

Correlation of somatic hypermutation specificity and A-T base pair substitution errors by DNA polymerase eta during copying of a mouse immunoglobulin kappa light chain transgene.

scientific article

Differential action of natural selection on the N and C-terminal domains of 2'-5' oligoadenylate synthetases and the potential nuclease function of the C-terminal domain

scientific article

Disruption of Transcriptional Coactivator Sub1 Leads to Genome-Wide Re-distribution of Clustered Mutations Induced by APOBEC in Active Yeast Genes

scientific article (publication date: May 2015)

Diverse roles of RAD18 and Y-family DNA polymerases in tumorigenesis

scientific article published on 23 April 2018

Diversity and Function of Adaptive Immune Receptors in a Jawless Vertebrate

scientific article

Domain mobility in proteins: functional and evolutionary implications

scientific article published on 16 January 2009

Double-strand breaks in DNA during somatic hypermutation of Ig genes: cause or consequence?

article

EREM: Parameter Estimation and Ancestral Reconstruction by Expectation-Maximization Algorithm for a Probabilistic Model of Genomic Binary Characters Evolution

scientific article

ESTMAP: a system for expressed sequence tags mapping on genomic sequences

scientific article

Ecdysozoan clade rejected by genome-wide analysis of rare amino acid replacements

scientific article

Emergence and subsequent functional specialization of kindlins during evolution of cell adhesiveness

scientific article

Error rate and specificity of human and murine DNA polymerase eta

scientific article (publication date: 14 September 2001)

Essential genes are more evolutionarily conserved than are nonessential genes in bacteria ⬇️

scientific article

Evidence of splice signal migration from exon to intron during intron evolution

scientific article

Evolution and diversification of lamprey antigen receptors: evidence for involvement of an AID-APOBEC family cytosine deaminase

scientific article published on 29 April 2007

Evolution of DNA polymerases: an inactivated polymerase-exonuclease module in Pol epsilon and a chimeric origin of eukaryotic polymerases from two classes of archaeal ancestors

scientific article

Evolution of alternative and constitutive regions of mammalian 5'UTRs.

scientific article

Evolution of mosaic operons by horizontal gene transfer and gene displacement in situ

scientific article

Evolution of protein domain promiscuity in eukaryotes

scientific article

Evolution of the deaminase fold and multiple origins of eukaryotic editing and mutagenic nucleic acid deaminases from bacterial toxin systems

scientific article

Evolution of the mouse polyubiquitin-C gene

scientific article

Evolutionarily conserved genes preferentially accumulate introns

scientific article

Evolutionary conservation suggests a regulatory function of AUG triplets in 5'-UTRs of eukaryotic genes

scientific article

Evolutionary dynamics of introns in plastid-derived genes in plants: saturation nearly reached but slow intron gain continues

scientific article

Evolutionary switches between two serine codon sets are driven by selection

scientific article

Exploring background mutational processes to decipher cancer genetic heterogeneity.

scientific article published on 4 May 2017

Extremely intron-rich genes in the alveolate ancestors inferred with a flexible maximum-likelihood approach

scientific article

Frequent Recombination Events in Leishmania donovani: Mining Population Data

scientific article published on 15 July 2020

Gene family level comparative analysis of gene expression in mammals validates the ortholog conjecture

scientific article

Gene loss, protein sequence divergence, gene dispensability, expression level, and interactivity are correlated in eukaryotic evolution

scientific article

Genetic characterization of feline calicivirus strains associated with varying disease manifestations during an outbreak season in Missouri (1995-1996).

scientific article published on 12 November 2013

Genome Evolution ⬇️

scientific article published on January 1, 2010

Genome sequence of the cyanobacterium Prochlorococcus marinus SS120, a nearly minimal oxyphototrophic genome

scientific article

Genome trees and the tree of life

scientific article

Genome trees constructed using five different approaches suggest new major bacterial clades ⬇️

scientific article published on October 20, 2001

Genome-wide mutation avalanches induced in diploid yeast cells by a base analog or an APOBEC deaminase

scientific article (publication date: 2013)

Germline viral "fossils" guide in silico reconstruction of a mid-Cenozoic era marsupial adeno-associated virus

scientific article

Getting positive about selection

scientific article

High frequency of somatic mutations in rat liver mitochondrial DNA.

scientific article

Homoplasy in genome-wide analysis of rare amino acid replacements: the molecular-evolutionary basis for Vavilov's law of homologous series

scientific article

Identification of a U7snRNA homologue mapping to the human Xq27.1 region, between the DXS1232 and DXS119 loci

scientific article published in March 1997

Identification of murine B cell lines that undergo somatic hypermutation focused to A:T and G:C residues

scientific article published on January 2008

Impairment of translation in neurons as a putative causative factor for autism

scientific article (publication date: 10 July 2014)

In search of lost introns

scientific article published in July 2007

Intron sliding in conserved gene families.

scientific article

LINE-1 element in the vole Microtus subarvalis.

scientific article

Low-fidelity DNA synthesis by human DNA polymerase theta.

scientific article published on 24 May 2008

Low-fidelity DNA synthesis by the L979F mutator derivative of Saccharomyces cerevisiae DNA polymerase zeta.

scientific article published on 20 April 2009

Method of predicting splice sites based on signal interactions

scientific article

Microevolutionary genomics of bacteria

scientific article

Mismatch repair-independent increase in spontaneous mutagenesis in yeast lacking non-essential subunits of DNA polymerase ε.

scientific article

Modulation of mutagenesis in eukaryotes by DNA replication fork dynamics and quality of nucleotide pools

scientific article published on 10 October 2012

Molecular dating: ape bones agree with chicken entrails

scientific article published in February 2005

Molecular organization and evolution of the D17Leh80-like loci in the mouse t complex

scientific article published on January 1, 1992

Multiple antimutagenesis mechanisms affect mutagenic activity and specificity of the base analog 6-N-hydroxylaminopurine in bacteria and yeast

scientific article published on 01 June 1998

Mutagenic specificity of the base analog 6-N-hydroxylaminopurine in the LYS2 gene of yeast Saccharomyces cerevisiae.

scientific article

Mutation hotspots in the p53 gene in tumors of different origin: correlation with evolutionary conservation and signs of positive selection

scientific article published on 01 August 2004

Mutational hotspots in the TP53 gene and, possibly, other tumor suppressors evolve by positive selection

scientific article

Mutator effects and mutation signatures of editing deaminases produced in bacteria and yeast.

scientific article published on January 2011

Negative correlation between expression level and evolutionary rate of long intergenic noncoding RNAs

scientific article

Novel aspects of Kindlin-3 function in humans based on a new case of leukocyte adhesion deficiency III ⬇️

scientific article published on July 1, 2012

Nucleotide Weight Matrices Reveal Ubiquitous Mutational Footprints of AID/APOBEC Deaminases in Human Cancer Genomes

scientific article published on 12 February 2019

Oncogenic potential is related to activating effect of cancer single and double somatic mutations in receptor tyrosine kinases ⬇️

scientific article published on July 16, 2012

Origin and evolution of retinoid isomerization machinery in vertebrate visual cycle: hint from jawless vertebrates

scientific article (publication date: 2012)

Origin and evolution of spliceosomal introns

scientific article

Palmitoylation of Metazoan Carotenoid Oxygenases

scientific article published on 22 April 2020

Patterns of intron gain and conservation in eukaryotic genes

scientific article

Pecularities of immunoglobulin gene structures as a basis for somatic mutation emergence

article

Phylogenetic analysis of the metazoan carotenoid oxygenase superfamily: a new ancestral gene assemblage of BCO-like (BCOL) proteins.

scientific article published on 16 October 2017

Preferential loss and gain of introns in 3' portions of genes suggests a reverse-transcription mechanism of intron insertion

scientific article published in August 2004

Prevalence of intron gain over intron loss in the evolution of paralogous gene families

scientific article

Primate and rodent specific intron gains and the origin of retrogenes with splice variants.

scientific article published on October 2010

Primordial spliceosomal introns were probably U2-type

scientific article

Purifying and directional selection in overlapping prokaryotic genes

scientific article

Purifying and positive selection in the evolution of stop codons

scientific article published on 18 June 2018

Reconstruction of ancestral protosplice sites

scientific article

Remarkable interkingdom conservation of intron positions and massive, lineage-specific intron loss and gain in eukaryotic evolution

scientific article

Repetitive DNA sequences in the common vole: cloning, characterization and chromosome localization of two novel complex repeats MS3 and MS4 from the genome of the East European vole Microtus rossiaemeridionalis.

scientific article published in August 1998

Retention of duplicated ITAM-containing transmembrane signaling subunits in the tetraploid amphibian species Xenopus laevis.

scientific article

Roles of DNA polymerases in replication, repair, and recombination in eukaryotes.

scientific article published on January 2006

Selection in the evolution of gene duplications

scientific article

Selection on start codons in prokaryotes and potential compensatory nucleotide substitutions

scientific article published on 29 September 2017

Sequence and gene content in 35 kb genomic clone mapping in the human Xq27.1 region.

scientific article

Signs of positive selection of somatic mutations in human cancers detected by EST sequence analysis

scientific article published on 9 February 2006

Similarity pattern analysis in mutational distributions

scientific article published on 01 November 1999

Somatic hypermutagenesis in immunoglobulin genes. III. Somatic mutations in the chicken light chain locus

article

Somatic mutation hotspots correlate with DNA polymerase eta error spectrum

scientific article published in June 2001

Support for the Coelomata clade of animals from a rigorous analysis of the pattern of intron conservation

scientific article

Tandem termination signal in plant mRNAs ⬇️

scientific article published on April 22, 2011

The SPANX gene family of cancer/testis-specific antigens: rapid evolution and amplification in African great apes and hominids

scholarly article

The complete genome of hyperthermophile Methanopyrus kandleri AV19 and monophyly of archaeal methanogens

scientific article

The cytidine deaminase AID exhibits similar functional properties in yeast and mammals

scientific article published on 10 October 2005

The ecoresponsive genome of Daphnia pulex

scientific article

The rhomboids: a nearly ubiquitous family of intramembrane serine proteases that probably evolved by multiple ancient horizontal gene transfers

scientific article

The role of alternative translation start sites in the generation of human protein diversity

scientific article published on 15 June 2005

The subclass approach for mutational spectrum analysis: application of the SEM algorithm

scientific article published in June 1998

The vast, conserved mammalian lincRNome

scientific article

Three distinct modes of intron dynamics in the evolution of eukaryotes

scientific article

Transcription of mammalian messenger RNAs by a nuclear RNA polymerase of mitochondrial origin

scientific article

Transcriptome dynamics of Deinococcus radiodurans recovering from ionizing radiation

scholarly article

U12 intron positions are more strongly conserved between animals and plants than U2 intron positions

scientific article

Whence genes in pieces: reconstruction of the exon-intron gene structures of the last eukaryotic common ancestor and other ancestral eukaryotes

scientific article

Widespread positive selection in synonymous sites of mammalian genes

scientific article published on 23 May 2007

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