- Noda M, Ko M, Ogura A,
Liu D-G, Amano T, Takano T, and Ikawa Y.
(1985). Sarcoma viruses carrying ras oncogenes induce differentiation-associated
properties in a neuronal cell line. Nature 318: 73-78.[Abs]
- Takano T and Ko MSH
(1985). Enhancer sequences for gene expression regulation. In: Takano
(ed.), Introduction to Genetic Engineering. Nanzan-Doh,
Press. pp. 227-256.
- Ko MSH and Takano T.
(1989). A highly inducible system of gene expression by positive
feedback production of glucocorticoid receptors. DNA 8: 127-133.[Abs]
- Ko MSH, Takahashi N,
Sugiyama N, and Takano T. (1989). An auto-inducible vector conferring
high glucocorticoid-inducibility upon stable transformant cells. Gene 84: 383-389.[Abs]
- Ko MSH, Ko SBH,
Takahashi N, Nishiguchi K, and Abe K. (1990).
Unbiased amplification of a highly complex mixture of DNA fragments by
"lone linker"-tagged PCR. Nucleic Acids Research 18:
4293-4294.[Abs]
- Ko MSH, Nakauchi H, and Takahashi N. (1990). The
dose-dependence of glucocorticoid-inducible
gene expression results from changes in the number of transcriptionally active templates. EMBO Journal 9: 2834-2882.[Abs]
- Ko MSH. (1990). An
"equalized cDNA library" by the reassociation of short double-stranded cDNAs. Nucleic Acids Research 18: 5705-5711.[Abs]
- Ko MSH. (1991). A
stochastic model for gene induction. J. Theor.
Biol. 153: 181-184.[Abs]
- Ko MSH. (1992).
Induction mechanism of a single gene molecule: Stochastic or
Deterministic? BioEssays 14:
341-346.[Abs]
- Takahashi N and Ko
MSH. (1993). The short 3'-end region of complementary DNAs as PCR-based polymorphic
markers for an expression map of the mouse genome. Genomics 16:
161-168.[Abs]
- Ko MSH. (1993). An
equalized cDNA library and its application. Tan. Kaku. Koso. 38:
420-428.[Abs]
- Rowe LB, Nadeau JH,
Turner R, Frankel WN, Letts VA, Eppig JT, Ko
MSH, Thurston SJ and Birkenmeier EH. (1994).
Maps from two interspecific backcross DNA
panels are available as a community genetic mapping resource. Mamm. Genome 5: 253-274.[Abs]
- Horton JH, Hagen MD
and Ko MSH. (1994). Optimized conditions for cycle sequencing of PCR
products. PCR Methods Appl. 3: 359-360.[Abs]
- Wang X, Qian J and Ko
MSH. (1994). Simple and robust screening of pooled YAC libraries by the
restriction enzyme digestion of PCR products. Genet. Anal. Techn. Appl. 11: 63-68.[Abs]
- Ko MSH, Wang X, Horton
JH, Hagen MD, Takahashi N, Maezaki Y and
Nadeau JH. (1994). Genetic mapping of 40 cDNA clones on the mouse genome by PCR. Mamm.
Genome 5: 349-355.[Abs]
- Takahashi N and Ko
MSH. (1994). Towards a whole cDNA catalog: an
equalized cDNA library from mouse embryos. Genomics 23: 202-210.[Abs]
- Ko MSH. (1994).
Strategy for the construction of an equalized cDNA library. In: Nojima (ed.), Gene Libraries, Yoh-Do Sha, Press. pp.
135-144.
- Ko MSH. (1995).
Equalized cDNA libraries. In: Larrick JW and Siebert PD (eds),
Reverse Transcriptase PCR. Ellis Horwood,
London. pp. 245-264.
- Harada H, Hashimoto K
and Ko MSH. (1996). The gene for multiple familial trichoepithelioma maps to chromosome 9p21. J. Invest. Dermatology 107: 41-43.[Abs]
- Yotsumoto S, Fujiwara H, Horton JH, Mosby TA, Wang X, Cui Y and Ko MSH. (1996).
Cloning and expression analyses of mouse dystroglycan gene: Specific expression in maternal decidua at the peri-implantation stage. Hum. Mol.
Genet. 5: 1259-1267.[Abs]
- Harada H, Hashimoto K, Toi Y, Yotsumoto S
and Ko MSH. (1997). Basal cell carcinoma occurring in multiple familial trichoepithelioma: detection of loss of heterozygosity in chromosome 9q. Arch. Dermatol. 133: 666-6667.[Abs]
- D'Esposito M, Matarazzo MR, Ciccodicola A,
Strazzullo M, Mazzarella R, Quaderi NA, Fujiwara H, Ko MSH, Rowe LB,
Ricco A, Archidiacono N, Rocchi M, Schlessinger D and D'Urso M. (1997). Differential
expression pattern of XqPAR-linked genes SYBL1
and IL9R correlates with the structure and evolution of the region. Hum.
Mol. Genet. 6: 1917-1923.[Abs]
- Srivastava AK, Pispa J, Hartung AJ, Du Y, Ezer S, Jenks T, Shimada T, Pekkanen M, Ko MSH, Thesleff I, Kere J and Schlessinger D. (1997). The
Tabby phenotype is caused by mutation in a mouse homologue of the EDA
gene, which reveals novel mouse and human exons and encodes a protein (ectodysplasin-A) with collagenous domains. Proc. Natl. Acad. Sci. USA 94: 13069-13074.[Abs]
- Jaradat SA, Ko MSH and Grossman LI. (1998). Tissue specific expression and
mapping of the COX7AH gene in mouse. Genomics 49: 363-370.[Abs]
- Yotsumoto S, Shimada T, Cui CY, Nakashima H, Fujiwara H and Ko MSH. (1998).
Expression of Adrenomedullin, a Hypotensive Peptide, in the Trophoblast Giant Cells at the Embryo Implantation Site in Mouse. Dev. Biol. 203: 264-275.[Abs]
- Schlessinger D and Ko
MSH. (1998). Developmental genomics and its relation to aging. Genomics 52: 113-118.[Abs]
- Abe K, Ko MSH and MacGregor GR. (1998). A systematic molecular genetic
approach to study mammalian germline development. Int. J. Dev. Biol. 42: 1051-1066.[Abs]
- Ko, MSH., Threat, TA, Wang,
X, Horton, JH, Cui, Y, Pryor, E, Paris, J, Wells-Smith, J, Kitchen, JR,
Rowe, LB, Eppig, J, Satoh, T, Brant, L,
Fujiwara, H, Yotsumoto, S and Nakashima, H.
(1998). Genome-wide mapping of unselected transcripts from extraembryonic tissue of 7.5-day mouse embryos
reveals enrichment in the t-complex and under-representation on the X
chromosome. Hum. Mol. Genet. 7: 1967-1978.[Abs]
- Nakashima H, Grahovac MJ, Mazzarella R,
Kitchen JR, Threat TA and Ko MSH. (1999). Two novel mouse genes - Nubp2,
mapped to the t-complex on Chromosome 17, and Nubp1, mapped to
Chromosome 16 - establish a new gene family of nucleotide binding
proteins in eukaryotes. Genomics 60: 152-160. [Abs]
- Leach R, Ko MSH, Krawetz S. (1999). Assignment of amyloid-precursor-like
protein 2 gene (APLP2) to 11q24 by fluorescent in situ hybridization. Cytogenet. Cell Genet. 87: 215-216.[Abs]
- Yotsumoto S, Kanzaki T, Ko MSH. (2000). Beta subunit of the
high affinity immunoglobulin E receptor, a candidate for atopic
dermatitis, is not imprinted. Br. J. Dermatol. 142:370-371. [Abs]
- Ko MSH, Kitchen JR,
Wang X., Threat TA, Wang X, Hasegawa A, Sun T, Grahovac MJ, Kargul GJ, Lim MK, Cui Y, Sano Y, Tanaka
T, Liang Y, Mason S, Paonessa PD, Sauls AD, DePalma GE, Sharara R, Rowe LB, Eppig J, Morrell C, Doi H (2000). Large-scale cDNA analysis reveals phased gene expression
patterns during preimplantation mouse development. Development 127: 1737-1749.[Abs]
- Chou SR, Brownell A,
Ko MSH, Kaplan J. (2000). Interferon gamma receptor gene: key role in
determining accessibility of NK-triggering antigens to recognition by
self-reactive NK cells. Cell Immunol.,
200: 88-97.[Abs]
- Kargul GJ, Nagaraja R, Shimada T, Grahovac MJ, Lim
MK, Nakashima H, Waeltz P, Ma P, Chen EY,
Schlessinger D, and Ko MSH. (2000). Eleven densely clustered genes, six
of them novel, in 176 kb of mouse t-complex DNA. Genome Res. 10:
916-923.[Abs]
- Tanaka TS, Jaradat SA, Lim MK, Kargul GJ, Wang X, Grahovac MJ, Pantano S, Sano Y, Piao Y, Nagaraja R, Doi H, Wood WH
3rd, Becker KG, and Ko MSH. (2000). Genome-wide expression profiling of
mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Proc. Natl. Acad. Sci. U S A 97: 9127-9132.[Abs]
- Nicholson RH, Pantano S, Eliason JF, Galy A, Weiler S, Kaplan
J, Hughes MR, and Ko MSH. (2000). Phemx, a
novel mouse gene expressed during hematopoiesis,
maps to the imprinted cluster on distal chromosome 7. Genomics 68: 13-21. [Abs]
- Cocchia M, Huber R, Pantano S, Chen EY, Forabosco A, Ko MSH, and Schlessinger D (2000).
PLAC1, an Xq26 gene with placenta-specific expression. Genomics 68: 305-312. [Abs]
- Kargul GJ, Dudekula DB, Qian Y, Lim MK, Jaradat SA,
Tanaka TS, Carter MG, and Ko MSH (2001). Verification and initial
annotation of the NIA mouse 15K cDNA clone
set. Nature Genetics 28: 17-18. [Abs]
- Cintron VJ, Ko MSH, Chi KD, Gross JP, Srinivas PR, Goustin AS, Grunberger G
(2001). Genetic mapping and functional studies of a natural inhibitor of
the insulin receptor tyrosine kinase: the
mouse ortholog of human alpha2-HS
glycoprotein. Int. J. Exp. Diabetes Res. 1: 249-263. [Abs]
- Piao Y, Ko NT, Lim MK,
and Ko MSH (2001). Construction of long-transcript enriched cDNA libraries from submicrogram amounts of total RNAs by a universal PCR amplification method. Genome
Res. 11: 1553-1558. [Abs]
- Barrett T, Xie T, Piao Y, Dillon-Carter O, Kargul GJ, Lim MK, Chrest FJ, Wersto R, Rowley DL, Juhaszova M, Zhou L, Vawter MP, Becker KG, Cheadle C, Wood WH 3rd, McCann UD, Freed WJ, Ko MSH, Ricaurte GA, Donovan DM (2001). A murine dopamine neuron-specific cDNA library and microarray: increased COXI
expression during methamphetamine neurotoxicity. Neurobiol.
Dis. 8: 822-833. [Abs]
- Hudson TJ, Church DM,
Greenaway S, Nguyen H, Cook A, Steen RG, Van Etten WJ, Castle AB, Strivens MA, Trickett P, Heuston C,
Davison C, Southwell A, Hardisty R, Varela-Carver A, Haynes AR, Rodriguez-Tome P, Doi H, Ko MSH, Pontius J, Schriml L, Wagner L, Maglott D, Brown SD, Lander ES, Schuler G, Denny P
(2001). A radiation hybrid map of mouse genes. Nat. Genet. 29: 201-205. [Abs]
- Sano Y, Shimada T,
Nakashima H, Nicholson RH, Eliason JF, Kocarek TA, Ko MSH (2001). Random monoallelic expression of three genes clustered
within 60 kb of mouse t complex genomic DNA. Genome Res. 11: 1833-1841. [Abs]
- Ko MSH (2001). Embryogenomics: developmental biology meets
genomics. Trends Biotechnol. 19: 511-518. [Abs]
- Leach R, Duniec-Dmuchowski Z, Tanaka T, Ko MSH, Krawetz SA. (2001) Assignment of OVCOV1 (alias
CGI-15) to human chromosome 20 band q13.1-->q13.2 by fluorescent in
situ hybridization. Cytogenet. Cell
Genet. 94(3-4): 252-253. [Abs]
- Chen G, Jaradat SA, Banerjee N,
Tanaka TS, Ko MSH and Zhang MQ (2002). Evaluation and comparison of
clustering algorithms in analyzing ES cell gene expression data. Statistica Sinica 12: 241-262.
- Cui CY, Durmowicz M, Tanaka TS, Hartung AJ, Tezuka T, Hashimoto K, Ko MSH, Srivastava AK, Schlessinger D. (2002). EDA targets
revealed by skin gene expression profiles of wild-type, Tabby and Tabby
EDA-A1 transgenic mice. Hum. Mol. Genet. 11: 1763-1773. [Abs]
- Leach RE, Duniec-Dmuchowski ZM, Pesole G, Tanaka TS, Ko MSH, Armant RD, Krawetz SA. (2002). Identification, molecular
characterization, and tissue expression of OVCOV1. Mamm.
Genome 13: 619-624. [Abs]
- VanBuren V, Piao Y, Dudekula DB, Qian Y, Carter MG, Martin PR, Stagg CA, Bassey
UC, Aiba K, Hamatani T, Kargul GJ, Luo AG, Kelso J, Hide W and Ko MSH.
(2002). Assembly, verification, and initial annotation of the NIA mouse
7.4K cDNA clone set. Genome Res. 12:
1999-2003. [Abs]
- Tanaka TS, Kunath T, Kimber WL, Jaradat SA,
Stagg CA, Usuda M, Yokota T, Niwa H, Rossant J, and Ko MSH. (2002). Gene expression
profiling of embryo-derived stem cells reveals candidate genes
associated with pluripotency and lineage specificity. Genome Res. 12: 1921-1928. [Abs]
- Suemizu H, Aiba H, Yoshikawa T, Sharov AA, Shimozawa N, Tamaoki N, and Ko MSH. (2003). Expression
profiling of placentomegaly associated with
nuclear transplantation of mouse ES cells. Dev. Biol. 253: 36-53. [Abs]
- Kimber WL, Puri N, Borgmeyer C, Ritter D, Sharov A, Seidman M, and Ko MSH.
(2003). Efficacy of 2-methoxyethoxy (2'-MOE)-modified antisense oligonucleotides for the study of mouse
preimplantation development. Reprod Biomed Online 6: 318-322. [Abs]
- Carter MG, Hamatani T, Sharov AA, Carmack CE, Qian Y, Ko NT, Dudekula DB, Brzoska PM,
Hwang SS, and Ko MSH. (2003). In situ-synthesized novel microarray
optimized for mouse stem cell and early developmental expression
profiling. Genome Res. 13: 1011-1021. [Abs]
- Galaviz-Hernandez
C, Stagg C, de Ridder G, Tanaka TS, Ko MSH,
Schlessinger D, Nagaraja R. (2003). Plac8 and Plac9, novel
placental-enriched genes identified through microarray analysis. Gene. 309: 81-89. [Abs]
- Buttitta L, Tanaka TS, Chen AE, Ko MS, Fan CM. (2003). Microarray analysis of somitogenesis reveals novel targets of different WNT
signaling pathways in the somitic mesoderm. Dev
Biol. 258(1): 91-104. [Abs]
- Carter MG, Piao Y, Dudekula
DB, Qian Y, VanBuren V, Sharov AA, Tanaka TS,
Martin PR, Bassey UC, Stagg CA, Aiba K, Hamatani T, Matoba R, Kargul GJ and Ko MSH. (2003). The
NIA cDNA Project in mouse stem cells and early
embryos. Comptes rendus - Biologies 326(10-11): 931-940. [Abs]
- Sharov AA, Piao Y,
Matoba R, Dudekula DB, Qian Y, VanBuren V,
Falco G, Martin PR, Stagg CA, Bassey UC, Wang Y, Carter MG, Hamatani T, Aiba K, Akutsu H, Sharova L, Tanaka TS, Kimber WL, Yoshikawa
T, Jaradat SA, Pantano S, Nagaraja R, Boheler KR, Taub D, Hodes RJ, Longo DL, Schlessinger D, Keller J, Klotz
E, Kelsoe G, Umezawa A, Vescovi AL, Rossant J, Kunath T, Hogan BL, Curci A, D'Urso M, Kelso J, Hide W, Ko MSH. (2003). Transcriptome analysis of mouse stem cells and early
embryos. PLoS Biol. 1: 410-419. [Abs]
- Kimber WL, Piao Y, Tanaka TS, Yoshikawa T, Hamatani T, Carter MG, and Ko MSH (2003). Systematic Analysis of Mouse
Preimplantation Development. In “Mammalian
Embryo Genomics” edited by Watson A. OECD 2003: ISBN 92-64-10426-7.
- Hamatani T, Carter MG, Sharov AA and Ko MSH. (2004). Dynamics of global gene
expression changes during mouse preimplantation development. Dev.
Cell. 6: 1-20. [Published
online Dec. 18, 2003].
- Ko MSH. (2004). Embryogenomics of pre-implantation mammalian
development: current status. Reprod. Fertil. Dev. 16(2): 79-85. [Online]
- Abe K, Yuzuriha M, Sugimoto M, Ko MS, Brathwaite M, Waeltz P, Nagaraja R. (2004) Gene content
of the 750-kb critical region for mouse embryonic ectoderm lethal tcl-w5. Mammalian Genome. 4: 265-276. [Abs]
- Hamatani T, Daikoku T, Wang H, Matsumoto H, Carter MG,
Ko MSH, Dey SK. (2004). Global gene expression
analysis identifies molecular pathways distinguishing blastocyst
dormancy and activation. Proc Natl Acad Sci USA. 101:
10326-10331. [Abs]
- Tanaka TS, Ko MSH.
(2004). A global view of gene expression in the preimplantation mouse
embryo: morula versus blastocyst. Eur J Obstet Gynecol Reprod Biol. 115 Suppl 1: S85-S91. [Abs]
- Hamatani T, Falco G, Carter MG, Akutsu H, Stagg CA,
Sharov AA, Dudekula DB, VanBuren V, Ko MSH.
(2004). Age-associated alteration of gene expression patterns in mouse
oocytes. Human Molecular Genetics. 13(19): 2263-2278. [Abs]
- Tanaka TS, Carter MG,
Aiba K, Jaradat SA, and Ko MSH (2004). Genomic
approaches to stem cell biology. To be published as Chapter 20 in Human Pluripotent Stem Cells. Edited by Odorico JS, Pedersen RA, and Zhang SU. BIOS
Scientific Publishers, Ltd.
- VanBuren V and Ko MSH (2004). Embryogenomics. Submitted
for the publication in Encyclopedia of Molecular Biology and Molecular
Medicine, Wiley-VCH.
- VanBuren V and Ko MSH (2004). Regulation of genome activity and genetic networks
in mammals. In preparation for a chapter of the text book entitled
"Mammalian Genomics." Edited by A Rubinsky and JM Graves.
- Ottolenghi C, Uda M, Hamatani T, Crisponi
L, Garcia JE, Ko M, Pilia G, Sforza C, Schlessinger D, Forabosco A.
(2004). Aging of oocyte, ovary, and human reproduction. Ann.
NY Acad. Sci. 2004 1034: 117-131. [Abs]
- Gerhard DS, Wagner L,
Feingold EA, Shenmen CM, Grouse LH, Schuler G,
Klein SL, Old S, Rasooly R, Good P, Guyer M, Peck AM, Derge JG, Lipman D, Collins FS, Jang W, Sherry S, Feolo M, Misquitta L, Lee
E, Rotmistrovsky K, Greenhut SF, Schaefer CF, Buetow K, Bonner TI, Haussler
D, Kent J, Kiekhaus M, Furey T, Brent M, Prange C, Schreiber K, Shapiro N, Bhat NK, Hopkins RF, Hsie F, Driscoll T, Soares MB, Casavant TL, Scheetz TE, Brown-stein MJ, Usdin TB, Toshiyuki S, Carninci P, Piao Y, Dudekula DB, Ko MS, Kawakami K, Suzuki Y, Sugano S, Gruber
CE, Smith MR, Simmons B, Moore T, Waterman R, Johnson SL, Ruan Y, Wei CL, Mathavan S, Gunaratne PH, Wu J, Garcia AM, Hulyk SW, Fuh E, Yuan Y, Sneed
A, Kowis C, Hodgson A, Muzny DM, McPherson J, Gibbs RA, Fahey J, Helton E, Ketteman M, Madan A, Rodrigues S, Sanchez A, Whiting M, Madari A, Young AC, Wetherby KD, Granite SJ, Kwong PN, Brinkley CP, Pearson RL, Bouffard GG, Blakesly RW, Green ED, Dickson MC, Rodriguez AC, Grimwood J, Schmutz J,
Myers RM, Butterfield YS, Griffith M, Griffith OL, Krzywinski MI, Liao N, Morrin R, Palmquist D, Petrescu AS, Skalska U, Smailus DE, Stott JM, Schnerch A, Schein JE, Jones SJ, Holt RA, Baross A, Marra MA, Clifton S, Makowski KA, Bosak S, Malek J; MGC Project Team. (2004). The status, quality, and expansion of the
NIH full-length cDNA project: the Mammalian
Gene Collection (MGC). Genome Res. 14(10B): 2121-2127. [Abs]
- Herrera L, Ottolenghi C, Garcia-Ortiz JE,
Pellegrini M, Manini F, Ko MS, Nagaraja R, Forabosco A, Schlessinger D.
(2005). Mouse ovary developmental RNA and protein markers from
gene expression profiling. Dev Biol. 279(2): 271-290. [Abs]
- Sakatani T, Kaneda A, Iacobuzio-Donahue
CA, Carter MG, Witzel SD, Okano H, Ko MS, Ohlsson R, Longo DL, Feinberg AP. (2005). Loss of
imprinting of Igf2 alters intestinal maturation and tumorigenesis in mice. Science. 307(5717): 1976-1978. [Abs]
- Sharov AA, Dudekula
DB, Ko MSH. (2005). A web-based tool for principal component and
significance analysis of microarray data. Bioinformatics. 21(10):
2548-2549. [Abs]
- Ko MSH (2005).
Molecular biology of preimplantation embryos: primer for philosophical
discussions. Reprod Biomed Online. 10 Suppl 1: 80-87. [Abs]
- McMahan J, Cohen J, Ko
M, Johnson M, Robertson J, Murphy T, Brinsden P, Hussein F, Savulescu J, McLaren A, McLean
S, Harris J, Schulman J, Edwards R, Pedersen R, Stock G, Grudzinskas G, Boivin J.
(2005). Discussion (day 2 session 2): Modern genetics and the human
embryo in vitro. Reprod Biomed
Online. 10 Suppl 1: 107-110. [Abs]
- Sharov AA, Dudekula
DB, Ko MS (2005). Genome-wide assembly and analysis of alternative
transcripts in mouse. Genome Res. 15(5): 748-754. [Abs]
- Akagi T, Usuda M, Matsuda T, Ko MSH, Niwa H, Asano
M, Koide H, and Yokota T. (2005). Identification of Zfp-57 as a
downstream molecule of STAT3 and Oct-3/4 in embryonic stem cells. Biochem. Biophys.
Res. Commun. 31(1): 23-30. [Abs]
- Tamura T, Thotakura P, Tanaka TS, Ko MS, Ozato K (2005). Identification of target genes and a unique cis-element regulated by IRF-8 in developing
macrophages. Blood. 106(6):1938-1947. [Abs]
- Carter MG, Sharov AA, VanBuren V, Dudekula DB, Carmack CE, Nelson C and Ko MSH (2005). Transcript copy number estimation using
a mouse wholegenome oligonucleotide microarray. Genome Biology. 6(7): R61. [Abs]
- Aiba K, Sharov AA,
Carter MG, Foroni C, Vescovi AL, Ko MS. (2006). Defining a developmental path to neural fate by
global expression profiling of mouse embryonic stem cells and adult
neural stem/progenitor cells. Stem Cells. 24(4): 889-895. [Abs]
- Yoshikawa T, Piao Y, Zhong J, Carter MG, Wang Y, Goldberg I, and Ko MSH.
(2006). High-throughput screen for genes predominantly expressed in the
ICM of mouse blastocysts by whole mount in situ hybridization. Gene Expr. Patterns. 6(2): 213-224. [Abs]
- Park JM, Kohn MJ, Bruinsma MW, Vech C, Intine RV, Fuhrmann S, Grinberg A, Mukherjee I,
Love PE, Ko MS, Depamphilis ML, Maraia RJ. (2006). The multifunctional RNA-binding
protein La is required for mouse development and for the establishment
of embryonic stem cells. Mol. Cell Biol. 26(4):1445-1451. [Abs]
- Das B, Cai L, Carter MG, Piao YL, Sharov AA, Ko MS, Brown
DD. (2006) Gene expression changes at metamorphosis induced by thyroid
hormone in Xenopus laevis tadpoles. Dev Biol. 291(2): 342-355. [Abs]
- Ko MSH, McLaren A (2006). Epigenetics of germ cells, stem cells, and
early embryos. Dev. Cell 10: 161-166. [Abs]
- Ko MSH (2006).
Expression profiling of the mouse early embryo: Reflections and
perspectives. Dev Dyn. 235(9):
2437-2448. [Abs]
- Rogers NT, Halet G, Piao Y, Carroll J, Ko MSH and Swann K
(2006). A Ca2+ signal during mouse egg activation affects
preimplantation development, gene expression patterns, and blastocyst
quality. Reproduction. 132(1): 45-57. [Abs]
- Tanaka TS, Lopez de Silanes I, Sharova LV, Akutsu H, Yoshikawa T, Amano H, Yamanaka S, Gorospe M,
Ko MSH (2006). Esg1, expressed exclusively in preimplantation embryos, germline, and embryonic stem cells, is a putative
RNA-binding protein with broad RNA targets. Dev. Growth Differ. 48(6): 381-90. [Abs]
- Falco G, Stanghellini
I, Ko MSH (2006). Use of Chuk as an internal
standard suitable for quantitative RT-PCR in mouse preimplantation
embryos. Reprod. BioMed. Online 13(3): 394-403. [Abs]
- Nakatake Y, Fukui N,
Iwamatsu Y, Masui S, Takahashi K, Yagi R, Yagi K, Miyazaki JI, Matoba R, Ko MS, Niwa H (2006).
Klf4 cooperates with Oct3/4 and Sox2 to activate the Lefty1 core
promoter in embryonic stem cells. Mol. Cell Biol. 26(20):
7772-7782. [Abs]
- Aiba K, Carter MG,
Matoba R, Ko MSH (2006). Genomic approaches to early embryogenesis and
stem cell biology. Semin. Reprod. Med. 24(5): 330-339. [Abs]
- Sharov AA, Dudekula
DB, Ko MS (2006). CisView: A browser and
database of cis-regulatory modules predicted
in the mouse genome. DNA Res. 13(3): 123-134. [Abs]
- Matoba R, Niwa H,
Masui S, Ohtsuka S, Carter MG, Sharov AA, and
Ko MSH (2006). Dissecting Oct3/4-regulated gene networks in embryonic
stem cells by expression profiling. PLoS One, 1: e26, 2006. [Abs]
- Hamatani T, Ko MSh, Yamada M, Kuji N, Mizusawa Y, Shoji M, Hada T, Asada H, Maruyama T, Yoshimura Y (2006). Global gene expression
profiling of preimplantation embryos. Hum Cell. 19(3): 98-117. [Abs]
- Masui S, Nakatake Y, Toyooka Y, Shimosato D, Yagi R, Takahashi K, Okochi H, Okuda A, Matoba R, Sharov AA, Ko MS, Niwa H (2007). Pluripotency
governed by Sox2 via regulation of Oct3/4 expression in mouse embryonic
stem cells. Nat Cell Biol. 9(6): 625-635. [Abs]
- Ulloa-Montoya
F, Kidder BL, Pauwelyn KA, Chase LG, Luttun A, Crabbe A, Geraerts M, Sharov AA, Piao Y, Ko MS, Hu WS, Verfaillie CM (2007). Comparative transcriptome analysis
of embryonic and adult stem cells with extended and limited
differentiation capacity. Genome Biol. 8(8): R163. [Abs]
- Sharova LV, Sharov AA,
Piao Y, Shaik N, Sullivan T, Stewart CL, Hogan
BL, Ko MS (2007). Global gene expression profiling reveals similarities
and differences among mouse pluripotent stem
cells of different origins and strains. Dev Biol. 307(2):
446-459. [Abs]
- Falco G, Lee SL, Stanghellini I, Bassey UC,
Hamatani T, Ko MS (2007). Zscan4: A novel gene expressed exclusively
in late 2-cell embryos and embryonic stem cells. Dev Biol. 307(2): 539-550. [Abs]
- Sharov AA and Ko MSH
(2007). Human ES cell profiling broadens the reach of bivalent domains. Cell
Stem Cell. 1:237-238. [Abs]
- Zahn JM, Poosala S, Owen AB, Ingram DK, Lustig A,
Carter A, Weeraratna AT, Taub DD, Gorospe M, Mazan-Mamczarz K, Lakatta EG, Boheler KR, Xu X, Mattson MP, Falco G, Ko MS,
Schlessinger D, Firman J, Kummerfeld SK, Wood WH 3rd, Zonderman AB, Kim SK, Becker
KG. (2007). AGEMAP: a gene expression database for aging in mice. PLoS Genet. 2007;3(11):e201. [Abs]
- Kaneda A, Wang CJ, Cheong R, Timp W, Onyango P, Wen B, Iacobuzio-Donahue CA, Ohlsson R, Andraos R, Pearson MA, Sharov AA, Longo DL,
Ko MS, Levchenko A, Feinberg AP. Enhanced
sensitivity to IGF-II signaling links loss of imprinting of IGF2 to increased
cell proliferation and tumor risk. Proc Natl Acad Sci USA.
2007;104(52):20926-20931. [Abs]
- Carter MG, Stagg CA,
Falco G, Yoshikawa T, Bassey UC, Aiba K, Sharova LV, Shaik N, Ko MS. An in situ hybridization-based screen for heterogeneously
expressed genes in mouse ES cells. Gene Expr Patterns. 2008;8(3):181-198. [Abs]
- Yan Z, Wang Z, Sharova
L, Sharov AA, Ling C, Piao Y, Aiba K, Matoba R, Wang W, and Ko MS
(2008). BAF250B-associated SWI/SNF chromatin-remodeling complex is
required to maintain undifferentiated mouse embryonic stem cells. Stem
Cells. 2008;26(5):1155-1165. [Abs]
- Vallee M, Aiba K, Piao Y, Palin MF, Ko MS, and Sirard MA (2008). Comparative analysis of oocyte
transcript profiles reveals a high degree of conservation among species. Reproduction. 2008;135(4):439-448. [Abs]
- Masui S, Ohtsuka S, Yagi R,
Takahashi K, Ko MS, and Niwa H (2008). Rex1/Zfp42 is dispensable for
pluripotency in mouse ES cells. BMC Dev Biol. 2008;8:45. [Abs]
- Sharov AA, Falco G,
Piao Y, Poosala S, Becker KG, Zonderman AB,
Longo DL, Schlessinger D, and Ko MSH (2008). Effects of aging and
calorie restriction on the global gene expression profiles of mouse
testis and ovary. BMC Biol. 2008;6:24. [Abs]
- Sharov AA, Masui S,
Sharova LV, Piao Y, Aiba K, Matoba R, Xin L, Niwa H, and Ko MS (2008).
Identification of Pou5f1, Sox2, and Nanog downstream target genes with statistical confidence by applying a novel
algorithm to time course microarray and genome-wide chromatin immunoprecipitation data. BMC Genomics.
2008;9:269. [Abs]
- Tsuji Y, Yoshimura N,
Aoki H, Sharov AA, Ko MS, Motohashi T, and
Kunisada T (2008). Maintenance of undifferentiated mouse embryonic stem
cells in suspension by the serum- and feeder-free defined culture condition. Dev Dyn. 2008;237(8):2129-2138. [Abs]
- Yellaboina S, Dudekula
DB, and Ko MSH (2008). Prediction of evolutionarily conserved interologs in Mus musculus. BMC Genomics. 2008;9:465. [Abs]
- Landry J, Sharov AA,
Piao Y, Sharova LV, Xiao H, Southon E, Matta J, Tessarollo L,
Zhang YE, Ko MS, Kuehn MR, Yamaguchi TP, and Wu C (2008). Essential role
of chromatin remodeling protein Bptf in early
mouse embryos and embryonic stem cells. PLoS Genet. 2008;4(10):e1000241. [Abs]
- Ko MSH (2008). Stem
Cell Biology, Chapter 66, pages 66-1 - 66-3, Harrison’s Principles of Internal
Medicine, 17th Edition. (Eds. Fauci AS, Braunwald E, Kasper DL, Hauser SL, Longo DL, Jameson
JL, Loscalzo J). McGraw-Hill, NY.
- Sharova LV, Sharov AA,
Nedorezov T, Piao Y, Shaik N, and Ko MS
(2008). Database for mRNA half-life of 19 977 genes obtained by DNA
microarray analysis of pluripotent and
differentiating mouse embryonic stem cells. DNA Res. 2008 Nov 11. [Abs]
- Aiba K, Nedorezov T,
Piao Y, Nishiyama A, Matoba R, Sharova LV, Sharov AA, Yamanaka S, Niwa H
and Ko MS (2008). Defining developmental potency and cell lineage
trajectories by expression profiling of differentiating mouse embryonic
stem cells. DNA Res. 2009 Feb;16(1):73-80. Epub 2008 Dec 26. [Abs]
- Kunisada M, Cui CY,
Piao Y, Ko MS and Schlessinger D (2009). Requirement for Shh and Fox family genes at different stages in
sweat gland development. Hum Mol Genet. 2009 May
15;18(10):1769-78. Epub 2009 Mar 6. [Abs]
- Sun C, Nakatake Y, Akagi T, Ura H, Matsuda T,
Nishiyama A, Koide H, Ko MS, Niwa H and Yokota T (2009). Dax1 binds to
Oct3/4 and inhibits its transcriptional activity in embryonic stem
cells. Mol Cell Biol. 2009 Aug;29(16):4574-83. Epub 2009 Jun 15. [Abs]
- Stanghellini I, Falco G, Lee SL, Monti M
and Ko MS (2009). Trim43a, Trim43b, and Trim43c: novel mouse
genes expressed specifically in mouse preimplantation embryos. Gene Expr Patterns. 2009 Aug 21. [Abs]
- Vallejo G, Maschi D, Mestre-Citrinovitz AC, Aiba K, Maronna R, Yohai V, Ko MS, Beato M, Saragüeta P (2009). Changes in global gene expression during in vitro decidualization of rat endometrial stromal cells. J
Cell Physiol. 2009 Sep 24. [Abs]
- Sharov AA and Ko MS
(2009). Exhaustive Search for Over-represented DNA Sequence Motifs with CisFinder. DNA
Res. 2009 Sep 9. [Abs]
- Nishiyama A, Xin L,
Sharov AA, Thomas M, Mowrer G, Meyers E, Piao Y, Mehta S, Yee S,
Nakatake Y, Stagg C, Sharova L, Correa-Cerro LS, Bassey U, Hoang H, Kim
E, Tapnio R, Qian Y, Dudekula D, Zalzman M, Li M, Falco G, Yang HT, Lee
SL, Monti M, Stanghellini I, Islam MN, Nagaraja R, Goldberg I, Wang W,
Longo DL, Schlessinger D, and Ko MSH (2009). Uncovering early response
of gene regulatory networks in ES cells by systematic induction of
transcription factors. Cell Stem
Cell. 2009 Oct 2;5(4):420-33. [Abs]
- Zalzman M, Falco G, Sharova LV, Nishiyama A, Thomas M, Lee SL, Stagg CA, Hoang HG, Yang HT, Indig FE, Wersto RP, Ko MS. (2010).
Zscan4 regulates telomere elongation and genomic stability in ES cells. Nature. 2010 Mar 24. [Abs]
|
