Nakagawa, Takeya, Kajitani, Takuya, Togo, Shinji, Masuko, Norio, Ohdan, Hideki, Hishikawa, Yoshitaka, ...
Transcriptional initiation is a key step in the control of mRNA synthesis and is intimately related to chromatin structure and histone modification. Here, we show that the ubiquitylation of H2A...
Mori, Daisuke, Yano, Yoshihisa, Toyo-oka, Kazuhito, Yoshida, Noriyuki, Yamada, Masami, Muramatsu, Masami, ...
NDEL1 is a binding partner of LIS1 that participates in the regulation of cytoplasmic dynein function and microtubule organization during mitotic cell division and neuronal migration. NDEL1...
Toyo-oka, Kazuhito, Sasaki, Shinji, Yano, Yoshihisa, Mori, Daisuke, Kobayashi, Takuya, Toyoshima, Yoko Y., ...
LIS1 is mutated in the human neuronal migration defect lissencephaly, and along with NDEL1 (formerly NUDEL), participates in the regulation of cytoplasmic dynein function during neuronal development....
Aihara, Hitoshi, Nakagawa, Takeya, Yasui, Kiyoshi, Ohta, Tsutomu, Hirose, Susumu, Dhomae, Naoshi, ...
Posttranslational histone modifications are important for the regulation of many biological phenomena. Here, we show the purification and characterization of nucleosomal histone kinase-1 (NHK-1)....
Aihara, Hitoshi, Nakagawa, Takeya, Yasui, Kiyoshi, Ohta, Tsutomu, Hirose, Susumu, Dhomae, Naoshi, ...
Posttranslational histone modifications are important for the regulation of many biological phenomena. Here, we show the purification and characterization of nucleosomal histone kinase-1 (NHK-1)....
Aihara, Hitoshi, Nakagawa, Takeya, Yasui, Kiyoshi, Ohta, Tsutomu, Hirose, Susumu, Dhomae, Naoshi, ...
Posttranslational histone modifications are important for the regulation of many biological phenomena. Here, we show the purification and characterization of nucleosomal histone kinase-1 (NHK-1)....
Carninci, Piero, Waki, Kazunori, Shiraki, Toshiyuki, Konno, Hideaki, Shibata, Kazuhiro, Itoh, Masayoshi, ...
We report the construction of the mouse full-length cDNA encyclopedia,the most extensive view of a complex transcriptome,on the basis of preparing and sequencing 246 libraries. Before cloning,cDNAs...
Watanabe, Tokumitsu, Akishita, Masahiro, Nakaoka, Takashi, Kozaki, Koichi, Miyahara, Yukiko, He, Hong, ...
Objectives: It has been demonstrated that 17β-estradiol (E2) has an inhibitory effect on the proliferation of vascular smooth muscle cells (VSMCs) through an estrogen receptor (ER)-dependent...
Identification of Sox-2 regulatory region which is under the control of Oct-3/4-Sox-2 complex (2002)
Tomioka, Mizuho, Nishimoto, Masazumi, Miyagi, Satoru, Katayanagi, Tomoko, Fukui, Nobutaka, Niwa, Hitoshi, ...
Sox‐2 is a transcriptional cofactor expressed in embryonic stem (ES) cells as well as in neuronal cells. It has been demonstrated that Sox‐2 plays an important role in supporting gene...
Yamamoto, Kazuo, Koga, Atsuro, Yamamoto, Mika, Nishi, Yu-ichi, Tamura, Taka-aki, Nogi, Yasuhisa, ...
Mammalian ribosomal RNA genes (rDNA) are transcribed by RNA polymerase I and at least two auxiliary factors, UBF and SL1/TFID/TIF-IB. It has also been reported that an additional factor(s) is...
Shibata, Kazuhiro, Itoh, Masayoshi, Aizawa, Katsunori, Nagaoka, Sumiharu, Sasaki, Nobuya, Carninci, Piero, ...
Carninci, Piero, Shibata, Yuko, Hayatsu, Norihito, Sugahara, Yuichi, Shibata, Kazuhiro, Itoh, Masayoshi, ...
Kamiya, Mamoru, Judson, Hannah, Okazaki, Yasushi, Kusakabe, Moriaki, Muramatsu, Masami, Takada, Shuji, ...
We describe a screen for new imprinted human genes, and the identification in this way of ZAC (zinc finger protein which regulates apoptosis and cell cycle arrest)/PLAGL1 (pleomorphic adenoma of...
Automated Filtration-Based High-Throughput Plasmid Preparation System (1999)
Itoh, Masayoshi, Kitsunai, Tokuji, Akiyama, Junichi, Shibata, Kazuhiro, Izawa, Masaki, Kawai, Jun, ...
Comprehensive Health Care for the Aged and Problems for Care and Nursing in Germany (1997)
Muramatsu, Tsukasa, Sakakura, Emiko, Muramatsu, Masami, Kokubu, Keiko
A Novel Control System for Polymerase Chain Reaction Using a RIKEN GS384 Thermalcycler (1997)
Sasaki, Nobuya, Izawa, Masaki, Shimojo, Masahito, Shibata, Kazuhiro, Akiyama, Jun-ichi, Itoh, Masayoshi, ...
We have developed a novel high-throughput thermalcycler, the RIKEN GS384, which has a maximum of 1536 wells and whose temperature can be controlled accurately and simultaneously for a very small...
High Efficiency Selection of Full-length cDNA by Improved Biotinylated Cap Trapper (1997)
Carninci, Piero, Westover, Arthur, Nishiyama, Yoko, Ohsumi, Tomoya, Itoh, Masayoshi, Nagaoka, Sumiharu, ...
We report here an improved protocol for the preparation of full-length cDNA libraries that improves the previously reported method (Carninci, P., Kvam, K., Kitamura, A. et al. 1996, Genomics, 137,...
Takada, Shuji, Okazaki, Yasushi, Kamiya, Mamoru, Ohsumi, Tomoya, Nomura, Osamu, Okuizumi, Hisato, ...
The Syrian cardiomyopathic hamster (BIO14.6), that develops both muscular dystrophy and progressive cardiomyopathy, is widely used as an animal model of autosomal recessive cardiomyopathy mimicking...
Kuromitsu, Junro, Kataoka, Hiroshi, Yamashita, Hideji, Muramatsu, Masami, Furuichi, Yasuhiro, Sekine, Teruaki, ...
We investigated the changes in the methylation patterns of CpG islands associated with blast formation of human peripheral blood lymphocytes activated by anti-CD3 and interleukin-2 (IL-2), using...
Acute changes in liver gene expression in the N-nitrosodiethylamine-treated rat (1994)
Suzuki, Toshiya, Imagawa, Masayoshi, Yamada, Ryutaro, Yokoyama, Kazushige, Kondo, Shinichi, Itakura, Keiichi, ...
We constructed a complementary DNA (cDNA) library from mRNAs of rat liver induced by an initiating dose of a chemical carcinogen, N-nitrosodiethylamine (DEN). Using a differential hybridization with...
Kato, Ko, Makino, Yasutaka, Kishimoto, Toshihiko, Yamauchi, Jun, Kato, Shigeaki, Muramatsu, Masami, ...
The conformatioal states of the mouse TATA-binding protein (TBP) in solution were studied. A histldlne tag and a factor Xa recognition site-carrying mouse TBP was expressed in E.coli, highly...
Application of the RLGS Method to Large-Size Genomes Using a Restriction Trapper (1994)
Okuizumi, Hisato, Okazaki, Yasushi, Sasaki, Nobuya, Muramatsu, Masami, Nakashima, Kiyoshi, Fan, Keijun, ...
We developed a method for producing restriction landmark genomic scanning (RLGS) profiles of large size genomes, such as those of higher plants or amphibians using a restriction trapper. Use of the...
Imoto, Hirosumi, Hirotsune, Shinji, Muramatsu, Masami, Okuda, Kiyoji, Sugimoto, Osamu, Chapman, Verne M., ...
Restriction landmark genomic scanning (RLGS) is a method for visualizing restriction landmarks, employing direct labeling of restriction sites of genomic DNA and high-resolution two-dimensional...
Chiba, Harumi, Muramatsu, Masami, Nomoto, Akio, Kato, Hiroyuki
A set of genes (SWI1, SWI2/SNF2, SWI3, SNF5 and SNF6) in Saccharomyces cerevisiae are required for transcription of a variety of yeast genes. It was recently reported that the mammalian...
Structure of a mammalian TBP (TATA-binding protein) gene: isolation of the mouse TBP genome (1993)
Sumita, Kohsuke, Makino, Yasutaka, Katoh, Koh, Kishimoto, Toshihiko, Muramatsu, Masami, Mikoshiba, Katsuhiko, ...
Kermekchiev, Milko, Muramatsu, Masami
Extracts obtained from mouse cells growth arrested at stationary phase or under serum starvation exhibit no specific rDNA transcription activity. Experiments with mixed transcriptionally active and...
Mishima, Yukio, Nishimura, Tetsuji, Muramatsu, Masami, Kominami, Ryo
S100 extract prepared from rapidly growing mouse FM3A cells (approx. 5�105 cells/ml) transcribed ribosomal RNA gene (rDNA) much more actively in vitro than that from stationary phase cells (1–2...
A new VNTR polymorphism at locus D1S340 (1993)
Honma, Masamitsu, Mitani, Khonosuke, Mizusawa, Hiroshi, Hayashi, Makoto, Sofuni, Toshio, Muramatsu, Masami, ...
The regulation of the murine Hox-2.5 gene expression during cell differentiation (1992)
Kondo, Takashi, Takahashi, Naoki, Muramatsu, Masami
The mouse Hox-2.5 gene containing a Drosophila Antennapedia-type homeobox sequence is expressed in a spatially and temporally restricted manner during embryogenesis. We found that the mouse embryonal...
A new VNTR-type RFLP probe ({lambda}TM-18) on chromosome 1 (D1S157) (1992)
Honma, Masamitsu, Mitani, Khonosuke, Mizusawa, Hiroshi, Sofuni, Toshio, Muramatsu, Masami, Kominami, Ryo
A new VNTR-type RFLP probe (ChdTC-114) on chromosome 20p (D20S72) (1992)
Honma, Masamitsu, Mitani, Khonosuke, Mizusawa, Hiroshi, Sofuni, Toshio, Muramatsu, Masami, Kominami, Ryo
A new VNTR-type RELP probe (ChdTC-15) on chromosome 12 (D12S65) (1992)
Honma, Masamitsu, Mitani, Khonosuke, Mizusawa, Hiroshi, Sofuni, Toshio, Muramatsu, Masami, Kominami, Ryo
The dyad palindromic glutathione transferase P enhancer binds multiple factors including AP1 (1992)
Diccianni, Mitchell, Imagawa, Masayoshi, Muramatsu, Masami
Glutathione Transferase P (GST-P) gene expression is dominantly regulated by an upstream enhancer (GPEI) consisting of a dyad of palindromically oriented imperfect TPA...
Imagawa, Masayoshi, Miyamoto, Aki, Shirakawa, Masahiro, Hamada, Hiroshi, Muramatsu, Masami
POU-specific and POU-homeo domains of Oct3 were produced in Echerichia coli for characterization of DNA binding to the octamer sequence. POU domain protein Including A, B and H domains could bind to...
Cloning and structural analysis of cDNA and the gene for mouse transcription factor UBF (1991)
Hisatake, Koji, Nishimura, Tetsuji, Maeda, Yasushi, Hanada, Ken-ichi, Song, Chao-Zhong, Muramatsu, Masami
The gene and protein structure of the mouse UBF (mUBF), a transcription factor for mouse ribosomal RNA gene, have been determined by cDNA and genomic clones. The unique mUBF gene consists of 21 exons...
Imakado, Sumihisa, Koike, Satoshi, Kondo, Shigeru, Sakai, Masaharu, Muramatsu, Masami
In order to determine the transactivation domain(s) of the rat estrogen receptor (rat ER), we made a number of rat ER deletion mutants and transfected the mutant plasmids into COS7 cells together...
Tamura, Taka-aki, Sumita, Kohsuke, Fujino, Ichiroh, Aoyama, Atsuo, Horikoshi, Masami, Hoffmann, Alexander, ...
A complementary DNA (cDNA) encoding a mouse TFIID (mlID) was isolated from mouse brain cDNA libraries. The 316 amino acid sequence deduced from cDNA sequences revealed the presence of an...
Isolation of estrogen receptor-binding sites in human genomic DNA (1991)
Inoue, Satoshi, Kondo, Shigeru, Hashimoto, Makoto, Kondo, Takashi, Muramatsu, Masami
Total genomic DNA digested by restriction enzymes was mixed with the DNA-binding domain of the estrogen receptor (ER-DBD) that was expressed in Escherichia coil and the fragments that bound to it...
Imagawa, Masayoshi, Osada, Shigehiro, Okuda, Akihiko, Muramatsu, Masami
The glutathione transferase P (GST-P) gene is specifically expressed during chemical hepato-carclnogenesis of the rat, whereas mRNA of this gene is virtually undetectable in normal liver. We have...
Miwa, Takeshi, Kominami, Ryo, Yoshikura, Hiroshi, Sudo, Kazuko, Muramatsu, Masami
The 3' termini of ribosomal RNA precursors from mouse FM3A cultured cells are mapped to eight sites within 625 bp downstream from the 3′ terminus of 28 S rRNA. Three additional sites are mapped In...
Molecular cloning and charcterization of rat estrogen receptor cDNA (1987)
Koike, Satoshi, Sakai, Masaharu, Muramatsu, Masami
A cDNA clone of rat uterus estrogen receptor (ER) has been isolated and sequenced. This clone contains a complete open reading frame encoding 600 amino acid residues which is 5 and 11 amino acids...
SUMI, Yoshihiko, NAKAMURA, Yuichi, AOKI, Nobuo, SAKAI, Masaharu, MURAMATSU, Masami
A 1.7 kilobase cDNA clone isolated from a human liver cDNA library contained 822 nucleotides encoding the carboxyl-terminal 274 amino acid sequence of α2-plasmin inhibitor, a stop codon and a 3′...
MISHIMA, Yukio, KOMINAMI, Ryo, MURAMATSU, Masami
Ehrlich ascites tumor cells were made permeable to nucleoside triphosphates by treating them with diethylaminoethyl (DEAE)-dextran. Permeable cells incorporated labeled UTP into RNA at a constant...
Cloning and the nucleotide sequence of rat glutathione S-transferase P cDNA (1985)
Suguoka, Yumiko, Kano, Toshiyuki, Okuda, Akihiko, Sakai, Masaharu, Kitagawa, Tomoyuki, Muramatsu, Masami
A cDNA library prepared from poly(A)+ RNA of 2-acetylaminofluorene (AAF) induced rat hepatocellular carcinoma was screened by synthetic DNA probes deduced from a partial amino acid sequence of...
SUZUKI, Noriaki, HOSOYA, Toichiro, IGARASHI, Tetsuya, MURAMATSU, Masami
The activities of template-engaged and “free” RNA polymerase I in isolated pro-static nuclei from rats treated with testosterone or cycloheximide were measured by the previous method with...
KAWAJIRI, Kaname, SOGAWA, Kazuhiro, GOTOH, Osamu, MURAMATSU, Masami, FUJII-KURIYAMA, Yoshiaki
Po1y(A)+ RNA was isolated from membrane-bound polysomes of the livers of 3- methylcholanthrene (MC)-treated rats, and was partially purified by sucrose density gradient centrifugation. The mRNA...
Nabeshima, Yo-ichi, Fujii-Kuriyama, Yoshiaki, Muramatsu, Masami, Ogata, Kikuo
We report here the molecular cloning and sequence analysis of DNAs complementary to mRNAs for myosin alkali light chain of chicken embryo and adult leg skeletal muscle. pSMA2-l contained an 818...
Mishima, Yukio, Financsek, Istvan, Kominami, Ryo, Muramatsu, Masami
Mouse and human cell extracts (S100) can support an accurate and efficient transcription initiation on homologous ribosomal RNA gene (rDNA) templates. The cell extracts were fractionated with the aid...
Kominami, Ryo, Mishima, Yukio, Urano, Yoshio, Sakai, Masaharu, Muramatsu, Masami
An Eco RI 6.6 kb DNA fragment containing the 3′-end of 28S ribosomal RNA gene of the mouse was detected by Southern blot hybridization, and cloned in a λ-phage vector. The site of transcription...
In vitro transcription of a cloned mouse nbosomal RNA gene (1981)
Mishima, Yukio, Yamamoto, Osami, Kominami, Ryo, Muramatsu, Masami
An in vitro transcription system which utilizes cloned mouse ribosomal RNA gene (rDNA) fragments and a mouse cell extract has been developed. RNA polymerase I is apparently responsible for this...
Closely Related mRNA Sequences of Protamines in Rainbow Trout Testis (1981)
SAKAI, Masaharu, FUJII-KURIYAMA, Yoshiaki, SAITO, Tsunehiro, MURAMATSU, Masami
Recombinant plasmids containing DNA complementary to protamine messenger RNA of rainbow trout (Salmo gairdnerii) have been isolated and sequenced. One of the clones contained the entire coding...
FUJII-KURIYAMA, Yoshiaki, TANIGUCHI, Tadatsugu, MIZUKAMI, Yuzuru, SAKAI, Masaharu, TASHIRO, Yutaka, MURAMATSU, Masami
Cytochrome P-450 mRNA has been partially purified from membrane-bound poly-somes of the livers of phenobarbital-treated rats by SDS-phenol-chloroform extraction, followed by poly(U)-Sepharose...
IGARASHI, Tetsuya, MISHIMA, Yokio, MURAMATSU, Masami, OGATA, Etsuro
After having defined reliable assay conditions for free and template-bound RNA polymerase I activities, we examined in detail the effect of thyroid hormone in vivo on nucleolar RNA polymerase I in...
Urano, Yoshio, Kominami, Ryo, Mishima, Yukio, Muramatsu, Masami
Approximately one kilobase pairs surrounding and upstream the transcription initiation site of a cloned ribosomal DNA (rDNA) of the mouse were sequenced. The putative transcription initiation site...
In vitro splicing of SV4O late mRNA in isolated nuclei from CV-1 cells (1980)
Hamada, Hiroshi, Igarashi, Tersuya, Muramatsu, Masami
An in vitro splicing system utilizing isolated nuclei of SV4O infected cells has been developed. Nuclei were isolated from CV-1 cells at a late stage of SV4O infection after a pulse-labeling with...
The Mechanism of Decrease in Nucleolar RNA Synthesis by Protein Synthesis Inhibition (1979)
MISHIMA, Yukio, MATSUI, Takashi, MURAMATSU, Masami
When protein biosynthesis is inhibited by either cycloheximide or puromycin, the nucleolar RNA synthesis of Ehrlich ascites tumor cells decreases by approximately 70% within 1 h, while the removal of...
Effect of Cycloheximide on the Synthesis and Processing of 5S RNA in HeLa Cells (1977)
HAYASHI, Yoko, KOMINAMI, Ryo, MURAMATSU, Masami
The synthesis and incorporation into ribosomes of 5S RNA were investigated under conditions of protein synthesis inhibition by cycloheximide. Within 1 h after addition of cycloheximide to the culture...
ONISHI, Toshio, MATSUI, Takashi, MURAMATSU, Masami
Although administration of cycloheximide to rats caused a rapid decrease (T1/2 75 min) in RNA polymerase I (or A) activity in the nucleolus, the activity in the nucleus or in the whole cell decreased...
UNUMA, Tadao, SENDA, Ryukichi, MURAMATSU, Masami
Nucleolar segregation which appears after treatment with actinomycin D has been explained as that of the granular from the fibrillar RNP component. In the present study, the nucleolus was segregated...
Orimo, Akira, Inoue, Satoshi, Minowa, Osamu, Tominaga, Nobuko, Tomioka, Yasuhiro, Sato, Miyuki, ...
The biological roles of estrogen-responsive finger protein (efp) in vivo were evaluated in mice carrying a loss-of-function mutation in efp by gene-targeted mutagenesis. Although efp homozygous mice...
Carninci, Piero, Nishiyama, Yoko, Westover, Arthur, Itoh, Masayoshi, Nagaoka, Sumiharu, Sasaki, Nobuya, ...
The advent of thermostable enzymes has led to great advances in molecular biology, such as the development of PCR and ligase chain reaction. However, isolation of naturally thermostable enzymes has...
Transcriptional sequencing: A method for DNA sequencing using RNA polymerase
Sasaki, Nobuya, Izawa, Masaki, Watahiki, Masanori, Ozawa, Kaori, Tanaka, Takumi, Yoneda, Yuko, ...
We have developed a sequencing method based on the RNA polymerase chain termination reaction with rhodamine dye attached to 3′-deoxynucleoside triphosphate (3′-dNTP). This method enables us to...
Miki, Rika, Kadota, Koji, Bono, Hidemasa, Mizuno, Yosuke, Tomaru, Yasuhiro, Carninci, Piero, ...
We have systematically characterized gene expression patterns in 49 adult and embryonic mouse tissues by using cDNA microarrays with 18,816 mouse cDNAs. Cluster analysis defined sets of genes that...
Nishimoto, Masazumi, Fukushima, Akiko, Okuda, Akihiko, Muramatsu, Masami
UTF1 is a transcriptional coactivator which has recently been isolated and found to be expressed mainly in pluripotent embryonic stem (ES) cells (A. Okuda, A. Fukushima, M. Nishimoto, et al., EMBO J....
Makino, Yasutaka, Yogosawa, Shingo, Kayukawa, Kentaro, Coin, Frederic, Egly, Jean-Marc, Wang, Zheng-xin, ...
We previously identified a novel TATA-binding protein (TBP)-interacting protein (TIP120) from the rat liver. Here, in an RNA polymerase II (RNAP II)-reconstituted transcription system, we demonstrate...
Ishiguro, Akira, Nogi, Yasuhisa, Hisatake, Koji, Muramatsu, Masami, Ishihama, Akira
The Rpb6 subunit of RNA polymerase II is one of the five subunits common to three forms of eukaryotic RNA polymerase. Deletion and truncation analyses of the rpb6 gene in the fission yeast...
Yamamoto, Kazuo, Koga, Atsuro, Yamamoto, Mika, Nishi, Yu-ichi, Tamura, Taka-aki, Nogi, Yasuhisa, ...
Mammalian ribosomal RNA genes (rDNA) are transcribed by RNA polymerase I and at least two auxiliary factors, UBF and SL1/TFID/TIF-IB. It has also been reported that an additional factor(s) is...
Isolation of Estrogen-Responsive Genes with a CpG Island Library
Watanabe, Toru, Inoue, Satoshi, Hiroi, Hisahiko, Orimo, Akira, Kawashima, Hiroyuki, Muramatsu, Masami
In order to isolate novel estrogen-responsive genes, we utilized a CpG island library in which the regulatory regions of genes are enriched. CpG islands were screened for the ability to bind to a...
Identification of Sox-2 regulatory region which is under the control of Oct-3/4–Sox-2 complex
Tomioka, Mizuho, Nishimoto, Masazumi, Miyagi, Satoru, Katayanagi, Tomoko, Fukui, Nobutaka, Niwa, Hitoshi, ...
Sox-2 is a transcriptional cofactor expressed in embryonic stem (ES) cells as well as in neuronal cells. It has been demonstrated that Sox-2 plays an important role in supporting gene expression in...
Automated Filtration-Based High-Throughput Plasmid Preparation System
Itoh, Masayoshi, Kitsunai, Tokuji, Akiyama, Junichi, Shibata, Kazuhiro, Izawa, Masaki, Kawai, Jun, ...
Current methods of plasmid preparation do not allow for large capacity automated processing. We have developed an automated high-throughput system that prepares plasmid DNA for large-scale...
Carninci, Piero, Shibata, Yuko, Hayatsu, Norihito, Sugahara, Yuichi, Shibata, Kazuhiro, Itoh, Masayoshi, ...
In the effort to prepare the mouse full-length cDNA encyclopedia, we previously developed several techniques to prepare and select full-length cDNAs. To increase the number of different cDNAs, we...
Shibata, Kazuhiro, Itoh, Masayoshi, Aizawa, Katsunori, Nagaoka, Sumiharu, Sasaki, Nobuya, Carninci, Piero, ...
The RIKEN high-throughput 384-format sequencing pipeline (RISA system) including a 384-multicapillary sequencer (the so-called RISA sequencer) was developed for the RIKEN mouse encyclopedia project....
Ito, Takashi, Ikehara, Tsuyoshi, Nakagawa, Takeya, Kraus, W. Lee, Muramatsu, Masami
We have used a purified recombinant chromatin assembly system, including ACF (Acf-1 + ISWI) and NAP-1, to examine the role of histone acetylation in ATP-dependent chromatin remodeling. The...
Aihara, Hitoshi, Nakagawa, Takeya, Yasui, Kiyoshi, Ohta, Tsutomu, Hirose, Susumu, Dhomae, Naoshi, ...
Posttranslational histone modifications are important for the regulation of many biological phenomena. Here, we show the purification and characterization of nucleosomal histone kinase-1 (NHK-1)....
Miyagi, Satoru, Saito, Tetsuichiro, Mizutani, Ken-ichi, Masuyama, Norihisa, Gotoh, Yukiko, Iwama, Atsushi, ...
The Sox-2 gene is expressed in embryonic stem (ES) cells and neural stem cells. Two transcription enhancer regions, Sox-2 regulatory region 1 (SRR1) and SRR2, were described previously based on their...
Targeting a Complex Transcriptome: The Construction of the Mouse Full-Length cDNA Encyclopedia
Carninci, Piero, Waki, Kazunori, Shiraki, Toshiyuki, Konno, Hideaki, Shibata, Kazuhiro, Itoh, Masayoshi, ...
We report the construction of the mouse full-length cDNA encyclopedia,the most extensive view of a complex transcriptome,on the basis of preparing and sequencing 246 libraries. Before cloning,cDNAs...
Yamamoto, Kazuo, Yamamoto, Mika, Hanada, Ken-ichi, Nogi, Yasuhisa, Matsuyama, Toshifumi, Muramatsu, Masami
We previously demonstrated the critical role of RNA polymerase I (Pol I)-associated factor PAF53 in mammalian rRNA transcription. Here, we report the isolation and characterization of another Pol...
Nishimoto, Masazumi, Miyagi, Satoru, Yamagishi, Toshiyuki, Sakaguchi, Takehisa, Niwa, Hitoshi, Muramatsu, Masami, ...
The POU transcription factor Oct-3/4 has been shown to be critical for maintaining embryonic stem (ES) cell character. However, the molecular mechanisms underlying its function remain elusive. We...
Complete Loss of Ndel1 Results in Neuronal Migration Defects and Early Embryonic Lethality
Sasaki, Shinji, Mori, Daisuke, Toyo-oka, Kazuhito, Chen, Amy, Garrett-Beal, Lisa, Muramatsu, Masami, ...
Regulation of cytoplasmic dynein and microtubule dynamics is crucial for both mitotic cell division and neuronal migration. NDEL1 was identified as a protein interacting with LIS1, the protein...
Ikeda, Hiromi, Serria, Mohamed S, Kakizaki, Ikuko, Hatayama, Ichiro, Satoh, Kimihiko, Tsuchida, Shigeki, ...
The Pi-class glutathione S-transferases (GSTs) play pivotal roles in the detoxification of xenobiotics, carcinogenesis and drug resistance. The mechanisms of regulation of these genes during drug...
Orimo, Akira, Inoue, Satoshi, Minowa, Osamu, Tominaga, Nobuko, Tomioka, Yasuhiro, Sato, Miyuki, ...
The biological roles of estrogen-responsive finger protein (efp) in vivo were evaluated in mice carrying a loss-of-function mutation in efp by gene-targeted mutagenesis. Although efp homozygous mice...
Carninci, Piero, Nishiyama, Yoko, Westover, Arthur, Itoh, Masayoshi, Nagaoka, Sumiharu, Sasaki, Nobuya, ...
The advent of thermostable enzymes has led to great advances in molecular biology, such as the development of PCR and ligase chain reaction. However, isolation of naturally thermostable enzymes has...
Transcriptional sequencing: A method for DNA sequencing using RNA polymerase
Sasaki, Nobuya, Izawa, Masaki, Watahiki, Masanori, Ozawa, Kaori, Tanaka, Takumi, Yoneda, Yuko, ...
We have developed a sequencing method based on the RNA polymerase chain termination reaction with rhodamine dye attached to 3′-deoxynucleoside triphosphate (3′-dNTP). This method enables us to...
Miki, Rika, Kadota, Koji, Bono, Hidemasa, Mizuno, Yosuke, Tomaru, Yasuhiro, Carninci, Piero, ...
We have systematically characterized gene expression patterns in 49 adult and embryonic mouse tissues by using cDNA microarrays with 18,816 mouse cDNAs. Cluster analysis defined sets of genes that...
Nishimoto, Masazumi, Fukushima, Akiko, Okuda, Akihiko, Muramatsu, Masami
UTF1 is a transcriptional coactivator which has recently been isolated and found to be expressed mainly in pluripotent embryonic stem (ES) cells (A. Okuda, A. Fukushima, M. Nishimoto, et al., EMBO J....
Makino, Yasutaka, Yogosawa, Shingo, Kayukawa, Kentaro, Coin, Frederic, Egly, Jean-Marc, Wang, Zheng-xin, ...
We previously identified a novel TATA-binding protein (TBP)-interacting protein (TIP120) from the rat liver. Here, in an RNA polymerase II (RNAP II)-reconstituted transcription system, we demonstrate...
Ishiguro, Akira, Nogi, Yasuhisa, Hisatake, Koji, Muramatsu, Masami, Ishihama, Akira
The Rpb6 subunit of RNA polymerase II is one of the five subunits common to three forms of eukaryotic RNA polymerase. Deletion and truncation analyses of the rpb6 gene in the fission yeast...
Yamamoto, Kazuo, Koga, Atsuro, Yamamoto, Mika, Nishi, Yu-ichi, Tamura, Taka-aki, Nogi, Yasuhisa, ...
Mammalian ribosomal RNA genes (rDNA) are transcribed by RNA polymerase I and at least two auxiliary factors, UBF and SL1/TFID/TIF-IB. It has also been reported that an additional factor(s) is...
Isolation of Estrogen-Responsive Genes with a CpG Island Library
Watanabe, Toru, Inoue, Satoshi, Hiroi, Hisahiko, Orimo, Akira, Kawashima, Hiroyuki, Muramatsu, Masami
In order to isolate novel estrogen-responsive genes, we utilized a CpG island library in which the regulatory regions of genes are enriched. CpG islands were screened for the ability to bind to a...
Identification of Sox-2 regulatory region which is under the control of Oct-3/4–Sox-2 complex
Tomioka, Mizuho, Nishimoto, Masazumi, Miyagi, Satoru, Katayanagi, Tomoko, Fukui, Nobutaka, Niwa, Hitoshi, ...
Sox-2 is a transcriptional cofactor expressed in embryonic stem (ES) cells as well as in neuronal cells. It has been demonstrated that Sox-2 plays an important role in supporting gene expression in...
Automated Filtration-Based High-Throughput Plasmid Preparation System
Itoh, Masayoshi, Kitsunai, Tokuji, Akiyama, Junichi, Shibata, Kazuhiro, Izawa, Masaki, Kawai, Jun, ...
Current methods of plasmid preparation do not allow for large capacity automated processing. We have developed an automated high-throughput system that prepares plasmid DNA for large-scale...
Carninci, Piero, Shibata, Yuko, Hayatsu, Norihito, Sugahara, Yuichi, Shibata, Kazuhiro, Itoh, Masayoshi, ...
In the effort to prepare the mouse full-length cDNA encyclopedia, we previously developed several techniques to prepare and select full-length cDNAs. To increase the number of different cDNAs, we...
Shibata, Kazuhiro, Itoh, Masayoshi, Aizawa, Katsunori, Nagaoka, Sumiharu, Sasaki, Nobuya, Carninci, Piero, ...
The RIKEN high-throughput 384-format sequencing pipeline (RISA system) including a 384-multicapillary sequencer (the so-called RISA sequencer) was developed for the RIKEN mouse encyclopedia project....
Ito, Takashi, Ikehara, Tsuyoshi, Nakagawa, Takeya, Kraus, W. Lee, Muramatsu, Masami
We have used a purified recombinant chromatin assembly system, including ACF (Acf-1 + ISWI) and NAP-1, to examine the role of histone acetylation in ATP-dependent chromatin remodeling. The...
Aihara, Hitoshi, Nakagawa, Takeya, Yasui, Kiyoshi, Ohta, Tsutomu, Hirose, Susumu, Dhomae, Naoshi, ...
Posttranslational histone modifications are important for the regulation of many biological phenomena. Here, we show the purification and characterization of nucleosomal histone kinase-1 (NHK-1)....
Miyagi, Satoru, Saito, Tetsuichiro, Mizutani, Ken-ichi, Masuyama, Norihisa, Gotoh, Yukiko, Iwama, Atsushi, ...
The Sox-2 gene is expressed in embryonic stem (ES) cells and neural stem cells. Two transcription enhancer regions, Sox-2 regulatory region 1 (SRR1) and SRR2, were described previously based on their...
Targeting a Complex Transcriptome: The Construction of the Mouse Full-Length cDNA Encyclopedia
Carninci, Piero, Waki, Kazunori, Shiraki, Toshiyuki, Konno, Hideaki, Shibata, Kazuhiro, Itoh, Masayoshi, ...
We report the construction of the mouse full-length cDNA encyclopedia,the most extensive view of a complex transcriptome,on the basis of preparing and sequencing 246 libraries. Before cloning,cDNAs...
Yamamoto, Kazuo, Yamamoto, Mika, Hanada, Ken-ichi, Nogi, Yasuhisa, Matsuyama, Toshifumi, Muramatsu, Masami
We previously demonstrated the critical role of RNA polymerase I (Pol I)-associated factor PAF53 in mammalian rRNA transcription. Here, we report the isolation and characterization of another Pol...
Nishimoto, Masazumi, Miyagi, Satoru, Yamagishi, Toshiyuki, Sakaguchi, Takehisa, Niwa, Hitoshi, Muramatsu, Masami, ...
The POU transcription factor Oct-3/4 has been shown to be critical for maintaining embryonic stem (ES) cell character. However, the molecular mechanisms underlying its function remain elusive. We...
Complete Loss of Ndel1 Results in Neuronal Migration Defects and Early Embryonic Lethality
Sasaki, Shinji, Mori, Daisuke, Toyo-oka, Kazuhito, Chen, Amy, Garrett-Beal, Lisa, Muramatsu, Masami, ...
Regulation of cytoplasmic dynein and microtubule dynamics is crucial for both mitotic cell division and neuronal migration. NDEL1 was identified as a protein interacting with LIS1, the protein...
Ikeda, Hiromi, Serria, Mohamed S, Kakizaki, Ikuko, Hatayama, Ichiro, Satoh, Kimihiko, Tsuchida, Shigeki, ...
The Pi-class glutathione S-transferases (GSTs) play pivotal roles in the detoxification of xenobiotics, carcinogenesis and drug resistance. The mechanisms of regulation of these genes during drug...
Sakaguchi, Takehisa, Nishimoto, Masazumi, Miyagi, Satoru, Iwama, Atsushi, Morita, Yohei, Iwamori, Naoki, ...
Many genes have been identified that are specifically expressed in multiple types of stem cells in their undifferentiated state. It is generally assumed that at least some of these putative...
Mori, Daisuke, Yano, Yoshihisa, Toyo-oka, Kazuhito, Yoshida, Noriyuki, Yamada, Masami, Muramatsu, Masami, ...
NDEL1 is a binding partner of LIS1 that participates in the regulation of cytoplasmic dynein function and microtubule organization during mitotic cell division and neuronal migration. NDEL1...
Nakagawa, Takeya, Kajitani, Takuya, Togo, Shinji, Masuko, Norio, Ohdan, Hideki, Hishikawa, Yoshitaka, ...
Transcriptional initiation is a key step in the control of mRNA synthesis and is intimately related to chromatin structure and histone modification. Here, we show that the ubiquitylation of H2A...
Toyo-oka, Kazuhito, Mori, Daisuke, Yano, Yoshihisa, Shiota, Masayuki, Iwao, Hiroshi, Goto, Hidemasa, ...
Protein phosphatase 4 catalytic subunit (PP4c) is a PP2A-related protein serine/threonine phosphatase with important functions in a variety of cellular processes, including microtubule (MT)...