Publications by authors named "Tatiana Tatarinova"

62Publications

Bioinformatics research at SBB-2019.

BMC Bioinformatics 2020 Sep 14;21(Suppl 11):366. Epub 2020 Sep 14.

La Verne University, La Verne, CA, 91750, USA.

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http://dx.doi.org/10.1186/s12859-020-03712-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7489004PMC
September 2020

Genomics and Systems Biology at the "Century of Human Population Genetics" conference.

BMC Genomics 2020 Sep 10;21(Suppl 7):592. Epub 2020 Sep 10.

The Digital Health Institute, I.M.Sechenov First Moscow State Medical University (Sechenov University), 119991, Moscow, Russia.

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http://dx.doi.org/10.1186/s12864-020-06993-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7487983PMC
September 2020

Bioinformatics Methods in Medical Genetics and Genomics.

Int J Mol Sci 2020 Aug 28;21(17). Epub 2020 Aug 28.

La Verne University, La Verne, CA 91750, USA.

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http://dx.doi.org/10.3390/ijms21176224DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7504073PMC
August 2020

The Investigation of Perennial Sunflower Species ( L.) Mitochondrial Genomes.

Genes (Basel) 2020 Aug 24;11(9). Epub 2020 Aug 24.

Institute of Biological Sciences, Plant Genetics, University of Rostock, 18059 Rostock, Germany.

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http://dx.doi.org/10.3390/genes11090982DOI Listing
August 2020

DNA methylation changes in clonally propagated oil palm.

Plant Cell Rep 2020 Sep 26;39(9):1219-1233. Epub 2020 Jun 26.

Advanced Biotechnology and Breeding Centre, Malaysian Palm Oil Board, 6 Persiaran Institusi, Bandar Baru Bangi, 43000, Kajang, Selangor, Malaysia.

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http://dx.doi.org/10.1007/s00299-020-02561-9DOI Listing
September 2020

PigLeg: prediction of swine phenotype using machine learning.

PeerJ 2020 23;8:e8764. Epub 2020 Mar 23.

Department of Biology, University of La Verne, La Verne, CA, United States of America.

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http://dx.doi.org/10.7717/peerj.8764DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7098386PMC
March 2020

The Impact of MNRI Therapy on the Levels of Neurotransmitters Associated with Inflammatory Processes.

Int J Mol Sci 2020 Feb 18;21(4). Epub 2020 Feb 18.

Family Medicine, Prairie Health and Wellness, Wichita, KS 67206, USA.

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http://dx.doi.org/10.3390/ijms21041358DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7072967PMC
February 2020

Computational models in genetics at BGRS-2018.

BMC Genet 2019 03 18;20(Suppl 1):28. Epub 2019 Mar 18.

Institute of Cytology and Genetics SB RAS, 630090, Novosibirsk, Russia.

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http://dx.doi.org/10.1186/s12863-019-0724-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6421937PMC
March 2019

Bioinformatics research at BGRS SB-2018.

J Bioinform Comput Biol 2019 02;17(1):1902001

5 University of La Verne, La Verne, CA, USA.

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http://dx.doi.org/10.1142/S0219720019020013DOI Listing
February 2019

Characterization of the mitochondrial genome of the MAX1 type of cytoplasmic male-sterile sunflower.

BMC Plant Biol 2019 Feb 15;19(Suppl 1):51. Epub 2019 Feb 15.

University of Rostock, Institute of Biological Sciences, Plant Genetics, Rostock, Germany.

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http://dx.doi.org/10.1186/s12870-019-1637-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6394147PMC
February 2019

A semiautomated whole-exome sequencing workflow leads to increased diagnostic yield and identification of novel candidate variants.

Cold Spring Harb Mol Case Stud 2019 04 1;5(2). Epub 2019 Apr 1.

Center for Personalized Medicine, Department of Pathology and Laboratory Medicine, Children's Hospital Los Angeles, Los Angeles, California 90027, USA.

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http://dx.doi.org/10.1101/mcs.a003756DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6549575PMC
April 2019

Bioinformatics research at BGRS-2018.

BMC Bioinformatics 2019 Feb 5;20(Suppl 1):33. Epub 2019 Feb 5.

Institute of Cytology and Genetics SB RAS, 630090, Novosibirsk, Russia.

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http://dx.doi.org/10.1186/s12859-018-2566-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6362573PMC
February 2019

PalmXplore: oil palm gene database.

Database (Oxford) 2018 01 1;2018. Epub 2018 Jan 1.

Advanced Biotechnology and Breeding Centre, Malaysian Palm Oil Board, No. 6, Persiaran Institusi, Bandar Baru Bangi, Kajang, Selangor, Malaysia.

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http://dx.doi.org/10.1093/database/bay095DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6146135PMC
January 2018

Introduction to the 9th Young Scientists School on Systems Biology and Bioinformatics (SBB'2017).

J Bioinform Comput Biol 2018 02 13;16(1):1802001. Epub 2018 Feb 13.

1 Institute of Cytology and Genetics SB RAS, Novosibirsk, Russia.

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http://dx.doi.org/10.1142/S0219720018020018DOI Listing
February 2018

Genetics at Belyaev Conference - 2017: introductory note.

BMC Genet 2017 12 28;18(Suppl 1):116. Epub 2017 Dec 28.

Institute of Cytology and Genetics SB RAS, Novosibirsk, Russia.

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http://dx.doi.org/10.1186/s12863-017-0577-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5751695PMC
December 2017

Nucleotide patterns aiding in prediction of eukaryotic promoters.

PLoS One 2017 15;12(11):e0187243. Epub 2017 Nov 15.

School of Systems Biology, George Mason University, Fairfax, VA, United States of America.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0187243PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5687710PMC
December 2017

Clinical utility of the low-density Infinium QC genotyping Array in a genomics-based diagnostics laboratory.

BMC Med Genomics 2017 10 6;10(1):57. Epub 2017 Oct 6.

Center for Personalized Medicine, Department of Pathology and Laboratory Medicine, Children's Hospital Los Angeles, Los Angeles, CA, USA.

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http://bmcmedgenomics.biomedcentral.com/articles/10.1186/s12
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http://dx.doi.org/10.1186/s12920-017-0297-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5639583PMC
October 2017

Identification of Transcriptional Regulators of Psoriasis from RNA-Seq Experiments.

Methods Mol Biol 2017 ;1613:355-370

Laboratory of Functional Genomics, Vavilov Institute of General Genetics RAS, Gubkina Street, 3119991, Moscow, Russia.

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http://dx.doi.org/10.1007/978-1-4939-7027-8_14DOI Listing
May 2018

Analysis of cis-Regulatory Elements in Gene Co-expression Networks in Cancer.

Methods Mol Biol 2017 ;1613:291-310

Spatial Sciences Institute, University of Southern California, Los Angeles, CA, USA.

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http://dx.doi.org/10.1007/978-1-4939-7027-8_11DOI Listing
May 2018

Seqping: gene prediction pipeline for plant genomes using self-training gene models and transcriptomic data.

BMC Bioinformatics 2017 Jan 27;18(Suppl 1):1426. Epub 2017 Jan 27.

Advanced Biotechnology and Breeding Center, Malaysian Palm Oil Board, 6 Persiaran Institusi, Bandar Baru Bangi, 43000, Kajang, Selangor, Malaysia.

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http://dx.doi.org/10.1186/s12859-016-1426-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5333190PMC
January 2017

Nucleotide diversity analysis highlights functionally important genomic regions.

Sci Rep 2016 10 24;6:35730. Epub 2016 Oct 24.

International Rice Research Institute, Los Baños, Laguna 4031, Philippines.

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http://dx.doi.org/10.1038/srep35730DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5075931PMC
October 2016

Toward high-resolution population genomics using archaeological samples.

DNA Res 2016 Aug 19;23(4):295-310. Epub 2016 Jul 19.

Bioinformatics Center, A.A. Kharkevich Institute for Information Transmission Problems, Russian Academy of Sciences, Moscow, Russian Federation Center for Personalized Medicine, Children's Hospital Los Angeles, Los Angeles, CA, USA Spatial Sciences Institute, University of Southern California, Los Angeles, CA, USA

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http://dx.doi.org/10.1093/dnares/dsw029DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4991838PMC
August 2016

A Rapid and Sensitive Next-Generation Sequencing Method to Detect RB1 Mutations Improves Care for Retinoblastoma Patients and Their Families.

J Mol Diagn 2016 07 4;18(4):480-93. Epub 2016 May 4.

Department of Pathology and Laboratory Medicine, Children's Hospital Los Angeles, Los Angeles, California; Department of Pathology, USC Roski Eye Institute, University of Southern California, Los Angeles, California. Electronic address:

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http://dx.doi.org/10.1016/j.jmoldx.2016.02.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5820122PMC
July 2016

The mysterious orphans of Mycoplasmataceae.

Biol Direct 2016 Jan 8;11(1). Epub 2016 Jan 8.

Department of Evolutionary and Environmental Biology and Institute of Evolution, University of Haifa, Haifa, Israel.

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http://dx.doi.org/10.1186/s13062-015-0104-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4706650PMC
January 2016

Lengths of Orthologous Prokaryotic Proteins Are Affected by Evolutionary Factors.

Biomed Res Int 2015 31;2015:786861. Epub 2015 May 31.

Department of Evolutionary and Environmental Biology and Institute of Evolution, University of Haifa, 3498838 Haifa, Israel.

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http://dx.doi.org/10.1155/2015/786861DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4465819PMC
March 2016

Reply to Mendez et al: the 'extremely ancient' chromosome that still isn't.

Eur J Hum Genet 2015 May 15;23(5):567-8. Epub 2014 Oct 15.

Department of Biology & Biochemistry, University of Houston, Houston, TX, USA.

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http://dx.doi.org/10.1038/ejhg.2014.227DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4402642PMC
May 2015

NPEST: a nonparametric method and a database for transcription start site prediction.

Quant Biol 2013 Dec;1(4):261-271

Children's Hospital Los Angeles and Keck School of Medicine, University of Southern California, Los Angeles, CA 90027, USA.

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http://dx.doi.org/10.1007/s40484-013-0022-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4156414PMC
December 2013

The 'extremely ancient' chromosome that isn't: a forensic bioinformatic investigation of Albert Perry's X-degenerate portion of the Y chromosome.

Eur J Hum Genet 2014 Sep 22;22(9):1111-6. Epub 2014 Jan 22.

Department of Biology & Biochemistry, University of Houston, Houston, TX, USA.

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http://dx.doi.org/10.1038/ejhg.2013.303DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4135414PMC
September 2014

Gene expression and nucleotide composition are associated with genic methylation level in Oryza sativa.

BMC Bioinformatics 2014 Jan 21;15:23. Epub 2014 Jan 21.

Children's Hospital Los Angeles, Keck School of Medicine, University of Southern California, 4650 Sunset Blvd, Los Angeles, CA 90027, USA.

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http://dx.doi.org/10.1186/1471-2105-15-23DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3903047PMC
January 2014

Cross-species analysis of genic GC3 content and DNA methylation patterns.

Genome Biol Evol 2013 ;5(8):1443-56

Laboratory of Applied Pharmacokinetics and Bioinformatics, University of Southern California.

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http://dx.doi.org/10.1093/gbe/evt103DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3762193PMC
December 2013

cisExpress: motif detection in DNA sequences.

Bioinformatics 2013 Sep 21;29(17):2203-5. Epub 2013 Jun 21.

Genomics and Computational Biology Research Group, Faculty of Computing, Engineering and Science, University of South Wales, Pontypridd, UK.

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http://dx.doi.org/10.1093/bioinformatics/btt366DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3740630PMC
September 2013

Tumor suppressors status in cancer cell line Encyclopedia.

Mol Oncol 2013 Aug 11;7(4):791-8. Epub 2013 Apr 11.

University of South Wales, Pontypridd, Wales, UK.

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http://dx.doi.org/10.1016/j.molonc.2013.04.001DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3729735PMC
August 2013

Two general methods for population pharmacokinetic modeling: non-parametric adaptive grid and non-parametric Bayesian.

J Pharmacokinet Pharmacodyn 2013 Apr 13;40(2):189-99. Epub 2013 Feb 13.

Laboratory of Applied Pharmacokinetics, Keck School of Medicine, University of Southern California, Los Angeles, CA, USA.

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http://dx.doi.org/10.1007/s10928-013-9302-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3630269PMC
April 2013

Evaluation of codon biology in citrus and Poncirus trifoliata based on genomic features and frame corrected expressed sequence tags.

DNA Res 2013 Apr 11;20(2):135-50. Epub 2013 Jan 11.

Key Laboratory of Horticultural Plant Biology MOE, Huazhong Agricultural University, Wuhan 430070, China.

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http://dx.doi.org/10.1093/dnares/dss039DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3628444PMC
April 2013

Methods of combinatorial optimization to reveal factors affecting gene length.

Bioinform Biol Insights 2012 10;6:317-27. Epub 2012 Dec 10.

Department of Evolutionary and Environmental Biology and Institute of Evolution, University of Haifa, Israel. ; Department of Computational Molecular Biology, Max Planck Institute for Molecular Genetics, Berlin, Germany.

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http://dx.doi.org/10.4137/BBI.S10525DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3528112PMC
January 2013

Mining of miRNAs and potential targets from gene oriented clusters of transcripts sequences of the anti-malarial plant, Artemisia annua.

Biotechnol Lett 2012 Apr 9;34(4):737-45. Epub 2011 Dec 9.

Departamento de Biología, Universidad Nacional de Colombia, Bogotá, Bogota, DC, Colombia.

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http://dx.doi.org/10.1007/s10529-011-0808-0DOI Listing
April 2012

Towards the integration of genomics, epidemiological and clinical data.

Genome Med 2011 Jul 27;3(7):48. Epub 2011 Jul 27.

Department of Computer Science, Royal Holloway, University of London, Egham, Surrey TW20 0EX, UK.

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http://dx.doi.org/10.1186/gm264DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3221549PMC
July 2011

Artificial microRNAs (amiRNAs) engineering - On how microRNA-based silencing methods have affected current plant silencing research.

Biochem Biophys Res Commun 2011 Mar 15;406(3):315-9. Epub 2011 Feb 15.

Key Lab of Horticultural Plant Biology (MOE), Huazhong Agricultural University, Shizishan, Wuhan 430070, China.

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http://dx.doi.org/10.1016/j.bbrc.2011.02.045DOI Listing
March 2011

Synonymous codon usage, GC(3), and evolutionary patterns across plastomes of three pooid model species: emerging grass genome models for monocots.

Mol Biotechnol 2011 Oct;49(2):116-28

Key Lab of Horticultural Plant Biology (MOE), Huazhong Agricultural University, Wuhan 430070, Shizishan, China.

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http://dx.doi.org/10.1007/s12033-011-9383-9DOI Listing
October 2011

GC3 biology in corn, rice, sorghum and other grasses.

BMC Genomics 2010 May 16;11:308. Epub 2010 May 16.

Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, Georgia 30332, USA.

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http://dx.doi.org/10.1186/1471-2164-11-308DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2895627PMC
May 2010

Genome-wide discovery of cis-elements in promoter sequences using gene expression.

OMICS 2009 Apr;13(2):139-51

Ceres, Inc. 1535 Rancho Conejo Road, Thousand Oaks, CA 91310, USA.

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http://www.liebertpub.com/doi/10.1089/omi.2008.0034
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http://dx.doi.org/10.1089/omi.2008.0034DOI Listing
April 2009

Kullback-Leibler Markov chain Monte Carlo--a new algorithm for finite mixture analysis and its application to gene expression data.

J Bioinform Comput Biol 2008 Aug;6(4):727-46

Department of Mathematics, Loyola Marymount University, Los Angeles, CA 90045, USA.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2696055PMC
http://dx.doi.org/10.1142/s0219720008003710DOI Listing
August 2008

Features of Arabidopsis genes and genome discovered using full-length cDNAs.

Plant Mol Biol 2006 Jan;60(1):69-85

Ceres Inc., 1535 Rancho Conejo Blvd., Thousand Oaks, CA 91320, USA.

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http://dx.doi.org/10.1007/s11103-005-2564-9DOI Listing
January 2006

Skew in CG content near the transcription start site in Arabidopsis thaliana.

Bioinformatics 2003 ;19 Suppl 1:i313-4

Ceres, Inc, 3007 Malibu Canyon Road, Malibu, CA 90265, USA.

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http://dx.doi.org/10.1093/bioinformatics/btg1043DOI Listing
October 2004