Igor B Rogozin

Igor B Rogozin

UNVERIFIED PROFILE

Are you Igor B Rogozin?   Register this Author

Register author
Igor B Rogozin

Igor B Rogozin

Publications by authors named "Igor B Rogozin"

Are you Igor B Rogozin?   Register this Author

100Publications

1398Reads

28Profile Views

Evolutionary aspects and enzymology of metazoan carotenoid cleavage oxygenases.

Biochim Biophys Acta Mol Cell Biol Lipids 2020 Feb 12:158665. Epub 2020 Feb 12.

Laboratory of Retinal Cell & Molecular Biology, National Eye Institute, National Institutes of Health, Bethesda, MD 20892, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.bbalip.2020.158665DOI Listing
February 2020

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

Cell Cycle 2018 8;17(7):833-843. Epub 2018 May 8.

a Department of Pathology and Laboratory Medicine , University of North Carolina at Chapel Hill Chapel Hill , NC , USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1080/15384101.2018.1456296DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6056224PMC
December 2019

Crossing fitness valleys via double substitutions within codons.

BMC Biol 2019 12 16;17(1):105. Epub 2019 Dec 16.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/s12915-019-0727-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6916188PMC
December 2019

DNA polymerase η mutational signatures are found in a variety of different types of cancer.

Cell Cycle 2018 15;17(3):348-355. Epub 2018 Feb 15.

g Eppley Institute for Research in Cancer and Allied Diseases , University of Nebraska Medical Center , Omaha , NE 68198, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1080/15384101.2017.1404208DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5914734PMC
September 2019

Comment on "A commensal strain of protects against skin neoplasia" by Nakatsuji .

Sci Adv 2019 09 11;5(9):eaaw3915. Epub 2019 Sep 11.

Eppley Institute for Research in Cancer and Allied Diseases, University of Nebraska Medical Center, Omaha, NE, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1126/sciadv.aaw3915DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6739109PMC
September 2019

Volatile Evolution of Long Non-Coding RNA Repertoire in Retinal Pigment Epithelium: Insights from Comparison of Bovine and Human RNA Expression Profiles.

Genes (Basel) 2019 03 8;10(3). Epub 2019 Mar 8.

Laboratory of Retinal Cell and Molecular Biology, National Eye Institute, National Institutes of Health, Bethesda, MD 20892, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.3390/genes10030205DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6471466PMC
March 2019

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

Cancers (Basel) 2019 Feb 12;11(2). Epub 2019 Feb 12.

Departments of Microbiology and Pathology; Biochemistry and Molecular Biology; Genetics, Cell Biology and Anatomy, University of Nebraska Medical Center, Omaha, NE 68198, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.3390/cancers11020211DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6406962PMC
February 2019

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

Genome Biol Evol 2018 08 1;10(8):1902-1919. Epub 2018 Aug 1.

National Center for Biotechnology Information, National Library of Medicine, NIH, Bethesda, Maryland.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/gbe/evy146DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6086092PMC
August 2018

Purifying and positive selection in the evolution of stop codons.

Sci Rep 2018 06 18;8(1):9260. Epub 2018 Jun 18.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/s41598-018-27570-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6006363PMC
June 2018

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

Sci Rep 2017 10 16;7(1):13192. Epub 2017 Oct 16.

Laboratory of Retinal Cell & Molecular Biology, National Eye Institute, National Institutes of Health, Bethesda, MD, 20892, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/s41598-017-13521-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5643517PMC
October 2017

Involvement of DNA mismatch repair in the maintenance of heterochromatic DNA stability in Saccharomyces cerevisiae.

PLoS Genet 2017 Oct 25;13(10):e1007074. Epub 2017 Oct 25.

Department of Biochemistry and Molecular Biology, Southern Illinois University School of Medicine, Carbondale, IL, United States of America.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pgen.1007074DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5673234PMC
October 2017

Selection on start codons in prokaryotes and potential compensatory nucleotide substitutions.

Sci Rep 2017 09 29;7(1):12422. Epub 2017 Sep 29.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/s41598-017-12619-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5622118PMC
September 2017

Exploring background mutational processes to decipher cancer genetic heterogeneity.

Nucleic Acids Res 2017 07;45(W1):W514-W522

National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkx367DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5793731PMC
July 2017

Evolutionary switches between two serine codon sets are driven by selection.

Proc Natl Acad Sci U S A 2016 11 31;113(46):13109-13113. Epub 2016 Oct 31.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894;

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1073/pnas.1615832113DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5135333PMC
November 2016

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

Life (Basel) 2016 Jul 15;6(3). Epub 2016 Jul 15.

Computational Biology Branch, National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.

View Article

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5041003PMC
http://dx.doi.org/10.3390/life6030027DOI Listing
July 2016

Transposable Element Insertions in Long Intergenic Non-Coding RNA Genes.

Front Bioeng Biotechnol 2015 9;3:71. Epub 2015 Jun 9.

Institute for Biomedical Technologies, National Research Council , Segrate , Italy.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.3389/fbioe.2015.00071DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4460805PMC
June 2015

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

PLoS Genet 2015 May 5;11(5):e1005217. Epub 2015 May 5.

Eppley Institute for Research in Cancer and Allied Diseases, University of Nebraska Medical Center, Omaha, Nebraska, United States of America.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pgen.1005217DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4420506PMC
May 2015

Genetics in genomic era.

Genet Res Int 2015 25;2015:364960. Epub 2015 Mar 25.

National Center for Biotechnology Information, NIH, Bethesda, MD, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1155/2015/364960DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4390167PMC
April 2015

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

Mol Biol Cell 2015 Feb 24;26(4):786-96. Epub 2014 Dec 24.

Department of Molecular Cardiology, Joseph J. Jacobs Center for Thrombosis and Vascular Biology, Lerner Research Institute, Cleveland Clinic, Cleveland, OH 44195

View Article

Download full-text PDF

Source
http://www.molbiolcell.org/content/early/2014/12/22/mbc.E14-
Web Search
http://www.molbiolcell.org/cgi/doi/10.1091/mbc.E14-08-1294
Publisher Site
http://dx.doi.org/10.1091/mbc.E14-08-1294DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4325847PMC
February 2015

Comparative mutational analyses of influenza A viruses.

RNA 2015 Jan 17;21(1):36-47. Epub 2014 Nov 17.

School of Public Health, Li Ka Shing Faculty of Medicine, The University of Hong Kong, Pokfulam, Hong Kong

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1261/rna.045369.114DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4274636PMC
January 2015

MitoCOGs: clusters of orthologous genes from mitochondria and implications for the evolution of eukaryotes.

BMC Evol Biol 2014 Nov 25;14:237. Epub 2014 Nov 25.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/s12862-014-0237-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4256733PMC
November 2014

Complexity of gene expression evolution after duplication: protein dosage rebalancing.

Authors:
Igor B Rogozin

Genet Res Int 2014 17;2014:516508. Epub 2014 Aug 17.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1155/2014/516508DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4150538PMC
September 2014

Generalized portrait of cancer metabolic pathways inferred from a list of genes overexpressed in cancer.

Genet Res Int 2014 27;2014:646193. Epub 2014 Aug 27.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1155/2014/646193DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4163292PMC
September 2014

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

Biol Direct 2014 Jul 10;9:16. Epub 2014 Jul 10.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1745-6150-9-16DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4099083PMC
July 2014

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

Genome Biol Evol 2014 Apr;6(4):754-62

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/gbe/evu051DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4007545PMC
April 2014

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

PLoS Genet 2013 5;9(9):e1003736. Epub 2013 Sep 5.

Eppley Institute for Research in Cancer and Allied Diseases, University of Nebraska Medical Center, Omaha, Nebraska, United States of America.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pgen.1003736DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3764175PMC
March 2014

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

Virus Genes 2014 Feb 12;48(1):96-110. Epub 2013 Nov 12.

Laboratory of Infectious Diseases, National Institute of Allergy and Infectious Diseases, National Institutes of Health, 50 South Drive MSC8007, Building 50, Room 6316, Bethesda, MD, 20892-8007, USA.

View Article

Download full-text PDF

Source
http://link.springer.com/10.1007/s11262-013-1005-0
Publisher Site
http://dx.doi.org/10.1007/s11262-013-1005-0DOI Listing
February 2014

The vast, conserved mammalian lincRNome.

PLoS Comput Biol 2013 28;9(2):e1002917. Epub 2013 Feb 28.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland, United States of America.

View Article

Download full-text PDF

Source
http://dx.plos.org/10.1371/journal.pcbi.1002917
Publisher Site
http://dx.doi.org/10.1371/journal.pcbi.1002917DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3585383PMC
October 2013

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

Wiley Interdiscip Rev RNA 2013 Jan-Feb;4(1):93-105. Epub 2012 Nov 8.

National Center for Biotechnology Information NLM/NIH, Bethesda, MD, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1002/wrna.1143DOI Listing
June 2013

Computational prediction of polycomb-associated long non-coding RNAs.

PLoS One 2012 13;7(9):e44878. Epub 2012 Sep 13.

Division of Biomedical Informatics, University of Arkansas for Medical Sciences, Little Rock, Arkansas, United States of America.

View Article

Download full-text PDF

Source
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0044878PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3441527PMC
March 2013

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

Environ Mol Mutagen 2012 Dec 10;53(9):699-724. Epub 2012 Oct 10.

Eppley Institute for Research in Cancer and Allied Diseases, ESH 7009, 986805 Nebraska Medical Center, University of Nebraska, Omaha, NE, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1002/em.21735DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3893020PMC
December 2012

AID/APOBEC cytosine deaminase induces genome-wide kataegis.

Biol Direct 2012 Dec 18;7:47; discussion 47. Epub 2012 Dec 18.

Eppley Institute for Research in Cancer and Allied Diseases, University of Nebraska Medical Center, Omaha, NE, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1745-6150-7-47DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3542020PMC
December 2012

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

Hum Mutat 2012 Nov 16;33(11):1566-75. Epub 2012 Jul 16.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1002/humu.22145DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3465464PMC
November 2012

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

Genome Biol Evol 2011 9;3:1390-404. Epub 2011 Nov 9.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/gbe/evr116DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3242500PMC
April 2012

Origin and evolution of spliceosomal introns.

Biol Direct 2012 Apr 16;7:11. Epub 2012 Apr 16.

National Center for Biotechnology Information NLM/NIH, 8600 Rockville Pike, Bldg, 38A, Bethesda, MD 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1745-6150-7-11DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3488318PMC
April 2012

Replication protein A (RPA) hampers the processive action of APOBEC3G cytosine deaminase on single-stranded DNA.

PLoS One 2011 15;6(9):e24848. Epub 2011 Sep 15.

Eppley Institute for Research in Cancer and Allied Diseases, University of Nebraska Medical Center, Omaha, Nebraska, United States of America.

View Article

Download full-text PDF

Source
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0024848PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3174200PMC
February 2012

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

Nucleic Acids Res 2011 Dec 3;39(22):9473-97. Epub 2011 Sep 3.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.

View Article

Download full-text PDF

Source
https://academic.oup.com/nar/article-lookup/doi/10.1093/nar/
Publisher Site
http://dx.doi.org/10.1093/nar/gkr691DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3239186PMC
December 2011

Genome evolution.

Adv Bioinformatics 2010 21;2010:643701. Epub 2011 Jul 21.

Laboratory of Bioinformatics, Faculty of Biology, A. Mickiewicz University, 61-614 Poznań, Poland.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1155/2010/643701DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3166573PMC
November 2011

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

PLoS Comput Biol 2011 Sep 15;7(9):e1002150. Epub 2011 Sep 15.

Department of Computer Science and Operations Research, Université de Montréal, Montréal, Québec, Canada.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1371/journal.pcbi.1002150DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3174169PMC
September 2011

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

Adv Bioinformatics 2010 6:167408. Epub 2010 May 6.

Department of Genetics, The Alexander Silberman Institute of Life Sciences, Faculty of Science, The Hebrew University of Jerusalem, Edmond J. Safra Campus, Givat Ram, Jerusalem 91904, Israel.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1155/2010/167408DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2866244PMC
July 2011

Tandem termination signal in plant mRNAs.

Gene 2011 Jul 22;481(1):1-6. Epub 2011 Apr 22.

Institute of Cytology and Genetics, Lavrentieva ave. 10, Novosibirsk, 630090, Russia.

View Article

Download full-text PDF

Source
https://linkinghub.elsevier.com/retrieve/pii/S03781119110015
Publisher Site
http://dx.doi.org/10.1016/j.gene.2011.04.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3105159PMC
July 2011

The ecoresponsive genome of Daphnia pulex.

Science 2011 Feb;331(6017):555-61

Center for Genomics and Bioinformatics, Indiana University, 915 East Third Street, Bloomington, IN 47405, USA.

View Article

Download full-text PDF

Source
http://www3.nd.edu/~mpfrende/PDFs/Science-2011-Colbourne-555
Web Search
http://www.sciencemag.org/cgi/doi/10.1126/science.1197761
Publisher Site
http://dx.doi.org/10.1126/science.1197761DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3529199PMC
February 2011

High frequency of somatic mutations in rat liver mitochondrial DNA.

Mutat Res 2010 Mar 29;685(1-2):97-102. Epub 2009 Dec 29.

Institute of Cytology and Genetics, Siberian Division of the Russian Academy of Sciences, pr. Lavrentyeva 10, 630090 Novosibirsk, Russia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.mrfmmm.2009.12.010DOI Listing
March 2010

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

Nucleic Acids Res 2009 Jun 20;37(11):3774-87. Epub 2009 Apr 20.

Laboratory of Molecular Genetics, National Institute of Environmental Health Sciences Research, NIH, DHHS, Research Triangle Park, NC 27709, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkp238DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2699522PMC
June 2009

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

Methods Mol Biol 2009 ;541:357-71

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/978-1-59745-243-4_16DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3410445PMC
June 2009

Analysis of rare genomic changes does not support the unikont-bikont phylogeny and suggests cyanobacterial symbiosis as the point of primary radiation of eukaryotes.

Genome Biol Evol 2009 May 25;1:99-113. Epub 2009 May 25.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/gbe/evp011DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2817406PMC
May 2009

Domain mobility in proteins: functional and evolutionary implications.

Brief Bioinform 2009 May 16;10(3):205-16. Epub 2009 Jan 16.

J. Craig Venter Institute, 9704 Medical Center Drive, Rockville, MD 20850, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bib/bbn057DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2722818PMC
May 2009

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

BMC Genomics 2009 Apr 16;10:162. Epub 2009 Apr 16.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2164-10-162DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2674463PMC
April 2009

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.

Biol Direct 2009 Mar 18;4:11. Epub 2009 Mar 18.

Eppley Institute for Research in Cancer and Allied Diseases, University of Nebraska Medical Center, Omaha, Nebraska 68198-7696, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1745-6150-4-11DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2669801PMC
March 2009

Primordial spliceosomal introns were probably U2-type.

Trends Genet 2008 Nov 27;24(11):525-8. Epub 2008 Sep 27.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, 8600 Rockville Pike, Bethesda, MD 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.tig.2008.09.002DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3381341PMC
November 2008

X-ray structure of the complex of regulatory subunits of human DNA polymerase delta.

Cell Cycle 2008 Oct 4;7(19):3026-36. Epub 2008 Oct 4.

Eppley Institute for Research in Cancer and Allied Diseases, University of Nebraska Medical Center, Omaha, Nebraska 68198-7696, USA.

View Article

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2605013PMC
http://dx.doi.org/10.4161/cc.7.19.6720DOI Listing
October 2008

A highly conserved family of inactivated archaeal B family DNA polymerases.

Biol Direct 2008 Aug 6;3:32. Epub 2008 Aug 6.

National Center for Biotechnology Information NLM, National Institutes of Health, Bethesda, MD, 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1745-6150-3-32DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2527604PMC
August 2008

Accumulation of GC donor splice signals in mammals.

Biol Direct 2008 Jul 9;3:30. Epub 2008 Jul 9.

Loyola University Medical Center, 2160 S. First Ave., Maywood, IL, 60153, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1745-6150-3-30DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2490688PMC
July 2008

Low-fidelity DNA synthesis by human DNA polymerase theta.

Nucleic Acids Res 2008 Jun 24;36(11):3847-56. Epub 2008 May 24.

Laboratory of Molecular Genetics and Laboratory of Structural Biology, NIEHS, National Institutes of Health, Department of Health and Human Services, Research Triangle Park, NC 27709, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gkn310DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2441791PMC
June 2008

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

Mol Biol Evol 2008 May 21;25(5):903-11. Epub 2008 Feb 21.

Department of Computer Science and Operations Research, Université de Montréal, Montréal, Québec, Canada.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/molbev/msn039DOI Listing
May 2008

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

Biol Direct 2008 May 14;3:19. Epub 2008 May 14.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1745-6150-3-19DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2426677PMC
May 2008

Evolution of protein domain promiscuity in eukaryotes.

Genome Res 2008 Mar 29;18(3):449-61. Epub 2008 Jan 29.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20894, USA.

View Article

Download full-text PDF

Source
http://www.genome.org/cgi/doi/10.1101/gr.6943508
Publisher Site
http://dx.doi.org/10.1101/gr.6943508DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2259109PMC
March 2008

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

Biol Direct 2008 Mar 17;3. Epub 2008 Mar 17.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1745-6150-3-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2292158PMC
March 2008

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

Mol Biol Evol 2008 Jan 31;25(1):111-9. Epub 2007 Oct 31.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/molbev/msm234DOI Listing
January 2008

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

Eur J Immunol 2008 Jan;38(1):227-39

Department of Microbiology and Immunology, University of Illinois College of Medicine, Chicago, IL 60612-7344, USA.

View Article

Download full-text PDF

Source
http://doi.wiley.com/10.1002/eji.200737664
Publisher Site
http://dx.doi.org/10.1002/eji.200737664DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4979537PMC
January 2008

Analysis of rare amino acid replacements supports the Coelomata clade.

Mol Biol Evol 2007 Dec 5;24(12):2594-7. Epub 2007 Oct 5.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/molbev/msm218DOI Listing
December 2007

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

Mol Biol Evol 2007 Nov 24;24(11):2583-92. Epub 2007 Sep 24.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/molbev/msm207DOI Listing
November 2007

Patterns of intron gain and conservation in eukaryotic genes.

BMC Evol Biol 2007 Oct 12;7:192. Epub 2007 Oct 12.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20894, USA.

View Article

Download full-text PDF

Source
http://bmcevolbiol.biomedcentral.com/articles/10.1186/1471-2
Publisher Site
http://dx.doi.org/10.1186/1471-2148-7-192DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2151770PMC
October 2007

Widespread positive selection in synonymous sites of mammalian genes.

Mol Biol Evol 2007 Aug 23;24(8):1821-31. Epub 2007 May 23.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/molbev/msm100DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2632937PMC
August 2007

Three distinct modes of intron dynamics in the evolution of eukaryotes.

Genome Res 2007 Jul 10;17(7):1034-44. Epub 2007 May 10.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1101/gr.6438607DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1899114PMC
July 2007

Evolutionarily conserved genes preferentially accumulate introns.

Genome Res 2007 Jul 10;17(7):1045-50. Epub 2007 May 10.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1101/gr.5978207DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1899115PMC
July 2007

In search of lost introns.

Bioinformatics 2007 Jul;23(13):i87-96

Department of Computer Science and Operations Research, Université de Montréal, Québec, Canada.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bioinformatics/btm190DOI Listing
July 2007

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

Nat Immunol 2007 Jun 29;8(6):647-56. Epub 2007 Apr 29.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/ni1463DOI Listing
June 2007

Known components of the immunoglobulin A:T mutational machinery are intact in Burkitt lymphoma cell lines with G:C bias.

Mol Immunol 2007 Apr 22;44(10):2659-66. Epub 2007 Jan 22.

Laboratory of Molecular Genetics, National Institute of Environmental Health Sciences, National Institutes of Health, D3-01, 111 T.W. Alexander Drive, Research Triangle Park, NC 27709, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.molimm.2006.12.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1868521PMC
April 2007

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

Mol Biol Evol 2007 Apr 13;24(4):1080-90. Epub 2007 Feb 13.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/molbev/msm029DOI Listing
April 2007

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

Trends Genet 2007 Mar 19;23(3):105-8. Epub 2007 Jan 19.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.tig.2007.01.001DOI Listing
March 2007

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

Int Rev Cytol 2006 ;255:41-132

Eppley Institute for Research in Cancer and Allied Diseases, Departments of Biochemistry and Molecular Biology, and Pathology and Microbiology, University of Nebraska Medical Center, Omaha, Nebraska 68198-6805, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/S0074-7696(06)55002-8DOI Listing
January 2007

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

BMC Genomics 2006 Dec 8;7:311. Epub 2006 Dec 8.

National Center for Biotechnology Information NLM, National Institutes of Health, Bethesda, MD 20894, USA.

View Article

Download full-text PDF

Source
http://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2
Publisher Site
http://dx.doi.org/10.1186/1471-2164-7-311DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1713244PMC
December 2006

Method of predicting splice sites based on signal interactions.

Biol Direct 2006 Apr 3;1:10. Epub 2006 Apr 3.

Department of Computer Science, College of Information Science and Technology, University of Nebraska at Omaha, Omaha, NE 68182-0116, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1745-6150-1-10DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1526722PMC
April 2006

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

Mol Immunol 2006 Mar 10;43(9):1481-4. Epub 2005 Oct 10.

National Center for Biotechnology Information NLM, National Institutes of Health, 8600 Rockville Pike, Bldg. 38A/room 5N505A, Bethesda, MD 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1016/j.molimm.2005.09.002DOI Listing
March 2006

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

BMC Cancer 2006 Feb 9;6:36. Epub 2006 Feb 9.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda MD, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1471-2407-6-36DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1431556PMC
February 2006

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

Biol Direct 2006 Jan 31;1. Epub 2006 Jan 31.

Department of Biostatistics and Computational Biology, University of Rochester Medical Center, 601 Elmwood Avenue, Rochester, NY 14642, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1186/1745-6150-1-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1403748PMC
January 2006

Diversity and function of adaptive immune receptors in a jawless vertebrate.

Science 2005 Dec;310(5756):1970-3

Howard Hughes Medical Institute, Department of Medicine, University of Alabama at Birmingham, Birmingham, AL 35294, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1126/science.1119420DOI Listing
December 2005

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

Nucleic Acids Res 2005 26;33(17):5512-20. Epub 2005 Sep 26.

Department of Computer Science, College of Information Science and Technology, University of Nebraska at Omaha, Omaha, NE 68182, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/nar/gki847DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1236974PMC
October 2005

APOBEC4, a new member of the AID/APOBEC family of polynucleotide (deoxy)cytidine deaminases predicted by computational analysis.

Cell Cycle 2005 Sep 6;4(9):1281-5. Epub 2005 Sep 6.

National Center for Biotechnology Information, NLM, National Institutes of Health, Bethesda, Maryland 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.4161/cc.4.9.1994DOI Listing
September 2005

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

Nature 2005 Aug;436(7051):735-9

Lerner Research Institute, The Cleveland Clinic Foundation, Cleveland, Ohio 44195, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1038/nature03848DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1352165PMC
August 2005

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

Mol Genet Genomics 2005 Jul 15;273(6):491-6. Epub 2005 Jun 15.

Institute of Cytology and Genetics, Novosibirsk 630090, Russia.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1007/s00438-005-1152-7DOI Listing
July 2005

Analysis of evolution of exon-intron structure of eukaryotic genes.

Brief Bioinform 2005 Jun;6(2):118-34

National Center for Biotechnology Information/NLM/NIH, 8600 Rockville Pike, Bldg. 38A, Bethesda, MD 20894, USA.

View Article

Download full-text PDF

Source
http://dx.doi.org/10.1093/bib/6.2.118DOI Listing
June 2005

Low variability of the POLG (CAG)n repeat in north Eurasian populations.

Hum Biol 2005 Jun;77(3):355-65

Institute of Biological Problems of the North, Far-East Branch of the Russian Academy of Sciences, Magadan 685000, Russia.

View Article

Download full-text PDF

Source
https://muse.jhu.edu/journals/human_biology/v077/77.3malyarc
Web Search
http://dx.doi.org/10.1353/hub.2005.0050DOI Listing
June 2005