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Our Science – Larionov Website

Vladimir L. Larionov, Ph.D.

Selected Publications

1)  Larionov V, Kouprina N, Graves J, Chen XN, Korenberg JR, Resnick MA.
Specific cloning of human DNA as yeast artificial chromosomes by transformation-associated recombination.
Proc. Natl. Acad. Sci. U.S.A. 93: 491-6, 1996.
[Journal]
2)  Kouprina N, Mullokandov M, Rogozin I, Collins K, Solomon G, Risinger J, Koonin E, Barrett J, Larionov V.
The SPANX gene family of cancer-testis specific antigens: rapid evolution, an unsual case of positive selection and amplicfication in African great apes and hominids.
Proc. Natl. Acad. Sci. USA. 101: 3077-3082, 2004.
[Journal]
3)  Kouprina N, Pavlicek A, Mochida GH, Solomon G, Gersch W, Yoon YH, Collura R, Ruvolo M, Barrett JC, Woods CG, Walsh CA, Jurka J, Larionov V.
Accelerated Evolution of the ASPM Gene Controlling Brain Size Begins Prior to Human Brain Expansion.
PLoS Biol. 2: 653-663, 2004.
[Journal]
4)  Kim JH, Ebersole T, Kouprina N, Noskov VN, Ohzeki J, Masumoto H, Mravinac B, Sullivan BA, Pavlicek A, Dovat S, Pack SD, Kwon YW, Flanagan PT, Loukinov D, Lobanenkov V, Larionov V.
Human gamma-satellite DNA maintains open chromatin structure and protects a transgene from epigenetic silencing.
Genome Res. 19: 533-44, 2009.
[Journal]
5)  Kim JH, Kononenko A, Erliandri I, Kim TA, Nakano M, Iida Y, Barrett JC, Oshimura M, Masumoto H, Earnshaw WC, Larionov V, Kouprina N.
Human artificial chromosome (HAC) vector with a conditional centromere for correction of genetic deficiencies in human cells.
Proc. Natl. Acad. Sci. U.S.A. 108: 20048-53, 2011.
[Journal]
6)  Kouprina N, Tomilin AN, Masumoto H, Earnshaw WC, Larionov V.
Human artificial chromosome-based gene delivery vectors for biomedicine and biotechnology.
Expert Opin Drug Deliv. 11: 517-35, 2014.
[Journal]
7)  Lee HS, Lee NC, Grimes BR, Samoshkin A, Kononenko AV, Bansal R, Masumoto H, Earnshaw WC, Kouprina N, Larionov V.
A new assay for measuring chromosome instability (CIN) and identification of drugs that elevate CIN in cancer cells.
BMC Cancer. 13: 252, 2013.
[Journal]
8)  Kouprina N, Earnshaw WC, Masumoto H, Larionov V.
A new generation of human artificial chromosomes for functional genomics and gene therapy.
Cell. Mol. Life Sci. 70: 1135-48, 2013.
[Journal]
9)  Tachiwana H, Miya Y, Shono N, Ohzeki JI, Osakabe A, Otake K, Larionov V, Earnshaw WC, Kimura H, Masumoto H, Kurumizaka H.
Nap1 regulates proper CENP-B binding to nucleosomes.
Nucleic Acids Res. 41: 2869-2880, 2013.
[Journal]
10)  Lee NC, Kononenko AV, Lee H, Tolkunova EN, Liskovykh MA, Masumoto H, Earnshaw WC, Tomilin AN, Larionov V, Kouprina N.
Protecting a transgene expression from the HAC-based vector by different chromatin insulators.
Cell. Mol. Life Sci. 70: 3723-37, 2013.
[Journal]
11)  Kononenko AV, Lee NC, Earnshaw WC, Kouprina N, Larionov V.
Re-engineering an alphoidtetO-HAC-based vector to enable high-throughput analyses of gene function.
Nucleic Acids Res. 41: e107, 2013.
[Journal]
12)  Ohzeki J, Bergmann JH, Kouprina N, Noskov VN, Nakano M, Kimura H, Earnshaw WC, Larionov V, Masumoto H.
Breaking the HAC Barrier: Histone H3K9 acetyl/methyl balance regulates CENP-A assembly.
EMBO J. 31: 2391-402, 2012.
[Journal]
13)  Zeeberg BR, Kohn KW, Kahn A, Larionov V, Weinstein JN, Reinhold W, Pommier Y.
Concordance of gene expression and functional correlation patterns across the NCI-60 cell lines and the Cancer Genome Atlas glioblastoma samples.
PLoS ONE. 7: e40062, 2012.
[Journal]
14)  Bergmann JH, Jakubsche JN, Martins NM, Kagansky A, Nakano M, Kimura H, Kelly DA, Turner BM, Masumoto H, Larionov V, Earnshaw WC.
Epigenetic engineering: histone H3K9 acetylation is compatible with kinetochore structure and function.
J. Cell. Sci. 125: 411-21, 2012.
[Journal]
15)  Kouprina N, Lee NC, Pavlicek A, Samoshkin A, Kim JH, Lee HS, Varma S, Reinhold WC, Otstot J, Solomon G, Davis S, Meltzer PS, Schleutker J, Larionov V.
Exclusion of the 750-kb genetically unstable region at Xq27 as a candidate locus for prostate malignancy in HPCX1-linked families.
Genes Chromosomes Cancer. 51: 933-48, 2012.
[Journal]
16)  Bergmann JH, Martins NM, Larionov V, Masumoto H, Earnshaw WC.
HACking the centromere chromatin code: insights from human artificial chromosomes.
Chromosome Res. 20: 505-19, 2012.
[Journal]
17)  Kouprina N, Samoshkin A, Erliandri I, Nakano M, Lee HS, Fu H, Iida Y, Aladjem M, Oshimura M, Masumoto H, Earnshaw WC, Larionov V.
Organization of Synthetic Alphoid DNA Array in Human Artificial Chromosome (HAC) with a Conditional Centromere.
ACS Synth Biol. 1: 590-601, 2012.
[Journal]
18)  Bergmann JH, Rodríguez MG, Martins NM, Kimura H, Kelly DA, Masumoto H, Larionov V, Jansen LE, Earnshaw WC.
Epigenetic engineering shows H3K4me2 is required for HJURP targeting and CENP-A assembly on a synthetic human kinetochore.
EMBO J. 30: 328-40, 2011.
[Journal]
19)  Reinhold WC, Erliandri I, Liu H, Zoppoli G, Pommier Y, Larionov V.
Identification of a predominant co-regulation among kinetochore genes, prospective regulatory elements, and association with genomic instability.
PLoS ONE. 6: e25991, 2011.
[Journal]
20)  Noskov VN, Chuang RY, Gibson DG, Leem SH, Larionov V, Kouprina N.
Isolation of circular yeast artificial chromosomes for synthetic biology and functional genomics studies.
Nat Protoc. 6: 89-96, 2011.
[Journal]
21)  Noskov VN, Lee NC, Larionov V, Kouprina N.
Rapid generation of long tandem DNA repeat arrays by homologous recombination in yeast to study their function in mammalian genomes.
Biol Proced Online. 13: 8, 2011.
[Journal]
22)  Zeeberg BR, Liu H, Kahn AB, Ehler M, Rajapakse VN, Bonner RF, Brown JD, Brooks BP, Larionov VL, Reinhold W, Weinstein JN, Pommier YG.
RedundancyMiner: De-replication of redundant GO categories in microarray and proteomics analysis.
BMC Bioinformatics. 12: 52, 2011.
[Journal]
23)  Kazuki Y, Hoshiya H, Takiguchi M, Abe S, Iida Y, Osaki M, Katoh M, Hiratsuka M, Shirayoshi Y, Hiramatsu K, Ueno E, Kajitani N, Yoshino T, Kazuki K, Ishihara C, Takehara S, Tsuji S, Ejima F, Toyoda A, Sakaki Y, Larionov V, Kouprina N, Oshimura M.
Refined human artificial chromosome vectors for gene therapy and animal transgenesis.
Gene Ther. 18: 384-93, 2011.
[Journal]
24)  Ebersole T, Kim J, Samoshkin A, Kouprina N, Pavlicek A, White RJ, Larionov V.
tRNA genes protect a reporter gene from epigenetic silencing in mouse cells.
Cell Cycle. 10: 2779-91, 2011.
[Journal]
25)  Iida Y, Kim J, Kazuki Y, Hoshiya H, Takiguchi M, Hayashi M, Erliandri I, Lee H, Samoshkin A, Masumoto H, Earnshaw WC, Kouprina N, Larionov V, Oshimura M.
Human Artificial Chromosome with a Conditional Centromere for Gene Delivery and Gene Expression.
DNA Res. 17: 293-301, 2010.
[Journal]
26)  Cardinale S, Bergmann JH, Kelly D, Nakano M, Valdivia MM, Kimura H, Masumoto H, Larionov V, Earnshaw WC.
Hierarchical Inactivation of a Synthetic Human Kinetochore by a Chromatin Modifier.
Mol. Biol. Cell. 20: 4194-204, 2009.
[Journal]
27)  Almanzar G, Olkhanud PB, Bodogai M, Dell'agnola C, Baatar D, Hewitt SM, Ghimenton C, Tummala MK, Weeraratna AT, Hoek KS, Kouprina N, Larionov V, Biragyn A.
Sperm-derived SPANX-B is a clinically relevant tumor antigen that is expressed in human tumors and readily recognized by human CD4+ and CD8+ T cells.
Clin. Cancer Res. 15: 1954-63, 2009.
[Journal]
28)  Nakano M, Cardinale S, Noskov VN, Gassmann R, Vagnarelli P, Kandels-Lewis S, Larionov V, Earnshaw WC, Masumoto H.
Inactivation of a human kinetochore by specific targeting of chromatin modifiers.
Dev. Cell. 14: 507-22, 2008.
[Journal]
29)  Leem SH, Yoon YH, Kim SI, Larionov V.
Purification of circular YACs from yeast cells for DNA sequencing.
Genome. 51: 155-8, 2008.
[Journal]
30)  Kouprina N, Larionov V.
Selective isolation of genomic loci from complex genomes by transformation-associated recombination cloning in the yeast Saccharomyces cerevisiae.
Nature protocols. 3: 371-7, 2008.
[Journal]
31)  Okamoto Y, Nakano M, Ohzeki J, Larionov V, Masumoto H.
A minimal CENP-A core is required for nucleation and maintenance of a functional human centromere.
EMBO J. 26: 1279-91, 2007.
[Journal]
32)  Okada T, Ohzeki J, Nakano M, Yoda K, Brinkley WR, Larionov V, Masumoto H.
CENP-B controls centromere formation depending on the chromatin context.
Cell. 131: 1287-300, 2007.
[Journal]
33)  Kouprina N, Noskov VN, Pavlicek A, Collins NK, Schoppee Bortz PD, Ottolenghi C, Loukinov D, Goldsmith P, Risinger JI, Kim JH, Westbrook VA, Solomon G, Sounders H, Herr JC, Jurka J, Lobanenkov V, Schlessinger D, Larionov V.
Evolutionary diversification of SPANX-N sperm protein gene structure and expression.
PLoS ONE. 2: e359, 2007.
[Journal]
34)  Kouprina N, Noskov VN, Solomon G, Otstot J, Isaacs W, Xu J, Schleutker J, Larionov V.
Mutational analysis of SPANX genes in families with X-linked prostate cancer.
Prostate. 67: 820-8, 2007.
[Journal]
35)  Kouprina N, Noskov VN, Larionov V.
Selective isolation of large chromosomal regions by transformation-associated recombination cloning for structural and functional analysis of mammalian genomes.
Methods Mol. Biol. 349: 85-101, 2006.
[Journal]
36)  Kouprina N, Larionov V.
TAR cloning: insights into gene function, long-range haplotypes and genome structure and evolution.
Nat. Rev. Genet. 7: 805-12, 2006.
[Journal]
37)  Ayabe F, Katoh M, Inoue T, Kouprina N, Larionov V, Oshimura M.
A novel expression system for genomic DNA loci using a human artificial chromosome vector with transformation-associated recombination cloning.
J. Hum. Genet. 50: 592-9, 2005.
[Journal]
38)  Horikawa I, Chiang YJ, Patterson T, Feigenbaum L, Leem SH, Michishita E, Larionov V, Hodes RJ, Barrett JC.
Differential cis-regulation of human versus mouse TERT gene expression in vivo: identification of a human-specific repressive element.
Proc. Natl. Acad. Sci. U.S.A. 102: 18437-42, 2005.
[Journal]
39)  Kouprina N, Pavlicek A, Noskov VN, Solomon G, Otstot J, Isaacs W, Carpten JD, Trent JM, Schleutker J, Barrett JC, Jurka J, Larionov V.
Dynamic Structure of the SPANX Gene Cluster Mapped to the Prostate Cancer Susceptibility Locus HPCX at Xq27.
Genome Research. 15, 2005.
[Journal]
40)  Ebersole T, Okamoto Y, Noskov VN, Kouprina N, Kim JH, Leem SH, Barrett JC, Masumoto H, Larionov V.
Rapid generation of long synthetic centromeric tandem repeats for analysis in human artificial chromosome formation.
Nucleic Acids Research. 33, 2005.
[Journal]
41)  Kouprina N, Pavlicek A, Collins NK, Nakano M, Noskov VN, Ohzeki J, Mochida GH, Risinger JI, Goldsmith P, Gunsior M, Solomon G, Gersch W, Kim JH, Barrett JC, Walsh CA, Jurka J, Masumoto H, Larionov V.
The microcephaly ASPM gene is expressed in proliferating tissues and encodes for a mitotic spindle protein.
Human Molecular Genetics. 2155-2165, 2005.
[Journal]
42)  Leem SH, Kouprina N, Grimwood J, J-H KIM, Mullokandov M, Y-H YOON, J-Y CHAE, Morgan J, Lucas S, Richardson P, Detter C, Glavina T, Rubin E, Barrett JC, Larionov V.
Closing the Gaps on Human Chromosome 19 Revealed Genes with a High Density of Repetitive Tandemly Arrayed Elements.
Genome Research. 14: 239-246, 2004.
[Journal]
43)  Pavlicek A, Noskov VN, Kouprina N, Barrett JC, Jurka J, Larionov V.
Evolution of the tumor suppressor BRCA1 locus in primates: implications for cancer predisposition.
Human Molecular Genetics. 1-15, 2004.
[Journal]
44)  Kouprina N, Noskov VN, Koriabine M, Leem SH, Larionov V.
Exploring transformation-associated recombination cloning for selective isolation of genomic regions.
Methods Mol. Biol. 255: 69-90, 2004.
[Journal]
45)  Grimwood J, Gordon LA, Olsen A, Terry A, Schmutz J, Lamerdin J, Hellsten U, Goodstein D, Couronne O, Tran-Gyamfi M, Aerts A, Altherr M, Ashworth L, Bajorek E, Black S, Branscomb E, Caenepeel S, Carrano A, Caoile C, Man CHAN, Christensen M, Cleland CA, Copeland A, Dalin E, Dehal P, Denys M, Detter JC, Escobar J, Flowers D, Fotopulos D, Garcia C, Georgescu AM, Glavina T, Gomez M, Gonzales E, Groza M, Hammon N, Hawkins T, Haydu L, Huang W, Israni S, Jett J, Kadner K, Kimball H, Kobayashi A, Larionov V, Leem SH, Lopez F, Lou Y, Lowry S, Malfatti S, Martinez D, McCready P, Medina C, Morgan J, Nelson K, Nolan M, Ovcharenko I, Pitluck S, Pollard M, Popkie AP, Predki P, Quan G, Ramirez L, Rash S, Retterer J, Rodriguez A, Rogers S, Salamov A, Salazar A, She X, Smith D, Slezak T, Solovyev V, Thayer N, Tice H, Tsai M, Ustaszewska A, Vo N, Wagner M, Wheeler J, Wu K, Xie G, Yang J, Dubchak I, Furey TS, Dejong P, Dickson M, Gordon D, Eichler EE, Pennacchio LA, Richardson P, Stubbs L, Rokhsar DS, Myers RM, Rubin EM, Lucas SM.
The DNA sequence and biology of human chromosome 19.
Nature. 428: 529-535, 2004.
[Journal]
46)  Noskov VN, Kouprina N, Leem SH, Ouspenski I, Barrett JC, Larionov V.
A general cloning system to selectively isolate any eukaryotic or prokaryotic genomic region in yeast.
BMC Genomics. 4: 16, 2003.
[Journal]
47)  Kouprina N, Ebersole T, Koriabine M, Pak E, Rogozin IB, Katoh M, Oshimura M, Ogi K, Peredelchuk M, Solomon G, Brown W, Barrett JC, Larionov V.
Cloning of human centromeres by transformation-associated recombination in yeast and generation of functional human artificial chromosomes.
Nucleic Acids Res. 31: 922-34, 2003.
[Journal]
48)  Leem SH, Noskov VN, Park JE, Kim SI, Larionov V, Kouprina N.
Optimum conditions for selective isolation of genes from complex genomes by transformation-associated recombination cloning.
Nucleic Acids Res. 31: e29, 2003.
[Journal]
49)  Kouprina N, Leem SH, Solomon G, Ly A, Koriabine M, Otstot J, Pak E, Dutra A, Zhao S, Barrett JC, Larionov V.
Segments missing from the draft human genome sequence can be isolated by transformation-associated recombination cloning in yeast.
EMBO Rep. 4: 257-62, 2003.
[Journal]
50)  Noskov V, Kouprina N, Leem SH, Koriabine M, Barrett JC, Larionov V.
A genetic system for direct selection of gene-positive clones during recombinational cloning in yeast.
Nucleic Acids Res. 30: E8, 2002.
[Journal]
51)  Nihei N, Kouprina N, Larionov V, Oshima J, Martin GM, Ichikawa T, Barrett JC.
Functional evidence for a metastasis suppressor gene for rat prostate cancer within a 60-kilobase region on human chromosome 8p21-p12.
Cancer Res. 62: 367-70, 2002.
[Journal]
52)  Leem SH, Londoño-Vallejo JA, Kim JH, Bui H, Tubacher E, Solomon G, Park JE, Horikawa I, Kouprina N, Barrett JC, Larionov V.
The human telomerase gene: complete genomic sequence and analysis of tandem repeat polymorphisms in intronic regions.
Oncogene. 21: 769-77, 2002.
[Journal]
53)  Noskov VN, Koriabine M, Solomon G, Randolph M, Barrett JC, Leem SH, Stubbs L, Kouprina N, Larionov V.
Defining the minimal length of sequence homology required for selective gene isolation by TAR cloning.
Nucleic Acids Res. 29: E32, 2001.
[Journal]
54)  Zeng C, Kouprina N, Zhu B, Cairo A, Hoek M, Cross G, Osoegawa K, Larionov V, de Jong P.
Large-insert BAC/YAC libraries for selective re-isolation of genomic regions by homologous recombination in yeast.
Genomics. 77: 27-34, 2001.
[Journal]
55)  Kim J, Noskov VN, Lu X, Bergmann A, Ren X, Warth T, Richardson P, Kouprina N, Stubbs L.
Discovery of a novel, paternally expressed ubiquitin-specific processing protease gene through comparative analysis of an imprinted region of mouse chromosome 7 and human chromosome 19q13.4.
Genome Res. 10: 1138-47, 2000.
[Journal]
56)  Annab LA, Kouprina N, Solomon G, Cable PL, Hill DE, Barrett JC, Larionov V, Afshari CA.
Isolation of a functional copy of the human BRCA1 gene by transformation-associated recombination in yeast.
Gene. 250: 201-8, 2000.
[Journal]
57)  Humble MC, Kouprina N, Noskov VN, Graves J, Garner E, Tennant RW, Resnick MA, Larionov V, Cannon RE.
Radial transformation-associated recombination cloning from the mouse genome: isolation of Tg.AC transgene with flanking DNAs.
Genomics. 70: 292-9, 2000.
[Journal]
58)  Cocchia M, Kouprina N, Kim SJ, Larionov V, Schlessinger D, Nagaraja R.
Recovery and potential utility of YACs as circular YACs/BACs.
Nucleic Acids Res. 28: E81, 2000.
[Journal]
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This page was last updated on 6/30/2014.