2008

1. Single-Cell Chemical Lysis Method for Analyses of Intracellular Molecules Using an Array of Picoliter-Scale Microwells.
   Sasuga Y, Iwasawa T, Terada K, Oe Y, Sorimachi H, Ohara O, Harada Y. (2008)
   Anal Chem. 80(23): 9141-9.


2. The universal trend of amino acid gain-loss is caused by CpG hypermutability.
   Misawa K, KamataniN, Kikuno RF (2008)
   J Mol Evol. 67(4): 334-42.


3. Smurf1 directly targets hPEM-2, a GEF for Cdc42, via a novel combination of protein interaction modules in the ubiquitin-proteasome pathway.
   Yamaguchi K, Ohara O, Ando A, Nagase T. (2008)
   Biol. Chem. 389(4): 405-13.


4. Exploration of Human ORFeome: High Throughput Preparation of ORF Clones and Efficient Characterization of Their Protein Products.
   Nagase T, Yamakawa H, Tadokoro S, Nakajima D, Inoue S, Yamaguchi K, Itokawa Y, Kikuno RF, Koga H, Ohara O. (2008)
   DNA Res. 15(3): 137-49.


5. The novel protein complex with SMARCAD1/KIAA1122 binds to the vicinity of TSS.
   Okazaki N, Ikeda S, Ohara R, Shimada K, Yanagawa T, Nagase T, Ohara O, Koga H. (2008)
   J Mol Biol. 382(2): 257-65.


6. Modified Multiple Primer Extension (MPEX) method.
   Yanagawa T, Koga H. (2008)
   Methods Mol Biol. 578: 425-35.


7. Genome-wide identification and characterization of transcripts translationally regulated by bacterial lipopolysaccharide in macrophage-like J774.1 cells.
   Kitamura H, Ito M, yuasa T, Kikuguchi C, Hijikata A, Takayama M, Kimura Y, Yokoyama R, Kaji T, Ohara O. (2008)
   Physiol Genomics. 33(1): 121-32.


8. The zinc transporter SLC39A13/ZIP13 is required for connective tissue development; its involvement In BMP/TGF-beta signaling pathways.
   Fukada T, Civic N, Furuichi T, Shimoda S, Mishima K, Higashiyama H, Idaira Y, Asada Y, Kitamura H, Yamasaki S, Hojyo S, Nakayama M, Ohara O, Koseki H, Dos Santos HG, Bonafe L, Ha-Vinh R, Zankl A, Unger S, Kraenzlin ME, Beckmann JS, Saito I, Rivolta C, Ikegawa S, Superti-Furga A, Hirano T. (2008)
   PLoS ONE. 3(11): e3642.


9. Human Proteinpedia enables sharing of human protein data.
   Mathivanan S, Ahmed M, Ahn NG, Alexandre H, Amanchy R, Andrews PC, Bader JS, Balgley BM, Bantscheff M, Bennett KL, Bjorling E, Blagoev B, Bose R, Brahmachari SK, Burlingame AS, Bustelo XR, Cagney G, Cantin GT, Cardasis HL, Celis JE, Chaerkady R, Chu F, Cole PA, Costello CE, Cotter RJ, Crockett D, DeLany JP, De Marzo AM, DeSouza LV, Deutsch EW, Dransfield E, Drewes G, Droit A, Dunn MJ, Elenitoba-Johnson K, Ewing RM, Van Eyk J, Faca V, Falkner J, Fang X, Fenselau C, Figeys D, Gagne P, Gelfi C, Gevaert K, Gimble JM, Gnad F, Goel R, Gromov P, Hanash SM, Hancock WS, Harsha HC, Hart G, Hays F, He F, Hebbar P, Helsens K, Hermeking H, Hide W, Hjerno K, Hochstrasser DF, Hofmann O, Horn DM, Hruban RH, Ibarrola N, James P, Jensen ON, Jensen PH, Jung P,Kandasamy K, Kheterpal I, Kikuno RF, Korf U, Korner R, Kuster B, Kwon MS, Lee HJ, Lee YJ, Lefevre M, Lehvaslaiho M, Lescuyer P, Levander F, Lim MS, Lobke C, Loo JA, Mann M, Martens L, Martinez-Heredia J, McComb M, McRedmond J, Mehrle A, Menon R, Miller CA, Mischak H, Mohan SS, Mohmood R, Molina H, Moran MF, Morgan JD, Moritz R, Morzel M, Muddiman DC, Nalli A, Navarro JD, Neubert TA, Ohara O, Oliva R, Omenn GS, Oyama M, Paik YK, Pennington K, Pepperkok R, Periaswamy B, Petricoin EF, Poirier GG,Prasad TS, Purvine SO, Rahiman BA, Ramachandran P, Ramachandra YL, Rice RH, Rick J, Ronnholm RH, Salonen J, Sanchez JC, Sayd T, Seshi B, Shankari K, Sheng SJ, Shetty V, Shivakumar K, Simpson RJ, Sirdeshmukh R, Siu KW, Smith JC, Smith RD, States DJ, Sugano S,Sullivan M, Superti-Furga G, Takatalo M, Thongboonkerd V, Trinidad JC, Uhlen M, Vandekerckhove J, Vasilescu J, Veenstra TD, Vidal-Taboada JM, Vihinen M, Wait R, Wang X, Wiemann S, Wu B, Xu T, Yates JR, Zhong J, Zhou M, Zhu Y, Zurbig P, Pandey A. (2008)
   Nat Biotechnol. 26(2): 164-7.


10. Germline mutations of MEK in cardio-facio-cutaneous syndrome are sensitive to MEK and RAF inhibition: implications for therapeutic options.
    Senawong T, Phuchareon J, Ohara O, McCormick F, Rauen KA, Tetsu O. (2008)
    Hum Mol Genet. 17(3): 419-30.


11. The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts.
    Genome Information Integration Project And H-Invitational 2, Yamasaki C, Murakami K, Fujii Y, Sato Y, Harada E, Takeda J, Taniya T, Sakate R, Kikugawa S, Shimada M, Tanino M, Koyanagi KO, Barrero RA, Gough C, Chun HW, Habara T, Hanaoka H, Hayakawa Y, Hilton PB, Kaneko Y, Kanno M, Kawahara Y, Kawamura T, Matsuya A, Nagata N, Nishikata K, Noda AO, Nurimoto S, Saichi N, Sakai H, Sanbonmatsu R, Shiba R, Suzuki M, Takabayashi K, Takahashi A, Tamura T, Tanaka M, Tanaka S, Todokoro F, Yamaguchi K, Yamamoto N, Okido T, Mashima J, Hashizume A, Jin L, Lee KB, Lin YC, Nozaki A, Sakai K, Tada M, Miyazaki S, Makino T, Ohyanagi H, Osato N, Tanaka N, Suzuki Y, Ikeo K, Saitou N, Sugawara H, O'Donovan C, Kulikova T, Whitfield E, Halligan B, Shimoyama M, Twigger S, Yura K, Kimura K, Yasuda T, Nishikawa T, Akiyama Y, Motono C, Mukai Y, Nagasaki H, Suwa M, Horton P, Kikuno R, Ohara O, Lancet D, Eveno E, Graudens E, Imbeaud S, Debily MA, Hayashizaki Y, Amid C, Han M, Osanger A, Endo T, Thomas MA, Hirakawa M, Makalowski W, Nakao M, Kim NS, Yoo HS, De Souza SJ, Bonaldo Mde F, Niimura Y, Kuryshev V, Schupp I, Wiemann S, Bellgard M, Shionyu M, Jia L, Thierry-Mieg D, Thierry-MiegJ, Wagner L, Zhang Q, Go M, Minoshima S, Ohtsubo M, Hanada K, Tonellato P, Isogai T, Zhang J, Lenhard B, Kim S, Chen Z, Hinz U, Estreicher A, Nakai K, Makalowska I, Hide W, Tiffin N, Wilming L, Chakraborty R, Soares MB, Chiusano ML, Suzuki Y, Auffray C, Yamaguchi-Kabata Y, Itoh T, Hishiki T, Fukuchi S, Nishikawa K, Sugano S, Nomura N, Tateno Y, Imanishi T, Gojobori T. (2008)
    Nucleic Acids Res. 36 (Database issue): D793-9.


12. Polycomb group proteins Ring1A/B are functionally linked to the core transcriptional regulatory circuitry to maintain ES cell identity.
    Endoh M, Endo TA, Endoh T, Fujimura Y, Ohara O, Toyoda T, Otte AP, Okano M, Brockdorff N, Vidal M, Koseki H. (2008)
    Development. 135(8): 1513-24.


13. Discriminating gene expression profiles of memory B cell subpopulations.
    Ehrhardt GR, Hijikata A, Kitamura H, Ohara O, Wang JY, Cooper MD. (2008)
    J Exp Med. 205(8): 1807-17.


14. Crystal structure of DNMT3A ADD domain.
    Otani J, Arita K, Ariyoshi M, Inamoto S, Shirakawa M. (2008)
    Acta Cryst. A64(Suppl.): C246.


15. Heterotrimeric G Protein beta-lambda Subunits Stimulate FLJ00018, a Guanine Nucleotide Exchange Factorfor Rac1 and Cdc42.
    Ueda H, Nagae R, Kozawa M, Morishita R, Kimura S, Nagase T, Ohara O, Yoshida S, Asano T. (2008)
    J Biol Chem. 283(4): 1946-53.


16. BREK/LMTK2 is a myosin VI-binding protein involved in endosomal membrane trafficking.
    Inoue T, Kon T, Ohkura R, Yamakawa H, Ohara O, Yokota J, Sutoh K. (2008)
    Genes to Cells. 13(5): 483-95.


17. Analgesic requirements after major abdominal surgery are associated with OPRM1 gene polymorphism genotype and haplotype.
    Hayashida M, Nagashima M, Satoh Y, Katoh R, Tagami M, Ide S, Kasai S, Nishizawa D, Ogai Y, Hasegawa J, Komatsu H, Sora I, Fukuda K, Koga H, Hanaoka K, Ikeda K. (2008)
    Pharmacogenomics. 9(11): 1605-16.


18. Frequent and variable abnormalities in p14 tumor suppressor gene in glioma cell lines.
    Tanaka Y, Zhang SJ, Terasaki H, Koga H, Endo S, Usui H, Washiyama K, Kumanishi T, Uematsu Y, Itakura T. (2008)
    Brain Tumor Pathol. 25(1): 9-17.


19. Laser capture microdissection and cDNA array analysis for identification of mouse KIAA/FLJ genes differentially expressed in the embryonic dorsal spinal cord.
    Masuda T, Kai N, Sakuma C, Kobayashi K, Koga H, Yaginuma H. (2009)
    Brain Res. 1249: 61-7.


20. The death effector domain-containing DEDD supports S6K1 activity via preventing Cdk1-dependent inhibitory phosphorylation.
    Kurabe N, Arai S, Nishijima A, Kubota N, Suizu F, Mori M, Kurokawa J,Miyazaki MK, Ide T, Murakami K, Miyake K, Ueki K, Koga H, Yatomi Y, Tashiro F, Noguchi M, Kadowaki T, Miyazaki T. (2009)
    J Biol Chem. 284(8): 5050-5.