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<h2> Construction of an open-access database that integrates cross-reference information from the transcriptome and proteome of immune cells</h2> <em> Atsushi Hijikata <sup>1</sup>, Hiroshi Kitamura <sup>1</sup>, Yayoi Kimura <sup>1</sup>, Ryo Yokoyama <sup>1</sup>, Yuichi Aiba <sup>1</sup>, Yanyuan Bao <sup>1</sup>, Shigeharu Fujita <sup>1</sup>, Koji Hase <sup>1</sup>, Shohei Hori <sup>1</sup>, Yasuyuki Ishii <sup>1</sup>, Osami Kanagawa <sup>1</sup>, Hiroshi Kawamoto <sup>1</sup>, Kazuya Kawano <sup>1</sup>, Haruhiko Koseki <sup>1</sup>, Masato Kubo <sup>1</sup>, Ai Kurita-Miki <sup>1</sup>, Tomohiro Kurosaki <sup>1</sup>, Kyoko Masuda <sup>1</sup>, Mitsumasa Nakata <sup>1</sup>, Keisuke Oboki <sup>1</sup>, Hiroshi Ohno <sup>1</sup>, Mariko Okamoto <sup>1</sup>, Yoshimichi Okayama <sup>1</sup>, Jiyang O-Wang <sup>1</sup>, Hirohisa Saito <sup>1</sup>, Takashi Saito <sup>1</sup>, Machie Sakuma <sup>1</sup>, Katsuaki Sato <sup>1</sup>, Kaori Sato <sup>1</sup>, Ken-ichiro Seino <sup>1</sup>, Ruka Setoguchi <sup>1</sup>, Yuki Tamura <sup>1</sup>, Masato Tanaka <sup>1</sup>, Masaru Taniguchi <sup>1</sup>, Ichiro Taniuchi <sup>1</sup>, Annabelle Teng <sup>1</sup>, Takeshi Watanabe <sup>1</sup>, Hiroshi Watarai <sup>1</sup>, Sho Yamasaki <sup>1</sup> and Osamu Ohara <sup>1</sup><sup>,2</sup><sup>,*</sup></em> <p> <em> <sup>1</sup>RIKEN Research Center for Allergy and Immunology, 1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama, Kanagawa 230-0045 and <sup>2</sup>Department of Human Genome Technology, Kazusa DNA Research Institute, 2-6-7 Kazusa-Kamatari, Kisarazu, Chiba 292-0818, Japan </em> </p> <p> <em>Bioinformatics 2007 23(21):2934-2941; doi:10.1093/bioinformatics/btm430. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License. </em> </p> <p> </p> <p> <strong>Abstract</strong> </p> <p> <strong>Motivation:</strong> Although a huge amount of mammalian genomic data<sup></sup>does become publicly available, there are still hurdles for<sup></sup>biologists to overcome before such data can be fully exploited.<sup></sup>One of the challenges for gaining biological insight from genomic<sup></sup>data has been the inability to cross-reference transcriptomic<sup></sup>and proteomic data using a single informational platform. To<sup></sup>address this, we constructed an open-access database that enabled<sup></sup>us to cross-reference transcriptomic and proteomic data obtained<sup></sup>from immune cells.<sup></sup> </p> <p> <strong>Results:</strong> The database, named RefDIC (Reference genomics Database<sup></sup>of Immune Cells), currently contains: (i) quantitative mRNA<sup></sup>profiles for human and mouse immune cells/tissues obtained using<sup></sup>Affymetrix GeneChip technology; (ii) quantitative protein profiles<sup></sup>for mouse immune cells obtained using two-dimensional gel electrophoresis<sup></sup>(2-DE) followed by image analysis and mass spectrometry and<sup></sup>(iii) various visualization tools to cross-reference the mRNA<sup></sup>and protein profiles of immune cells. RefDIC is the first open-access<sup></sup>database for immunogenomics and serves as an important information-sharing<sup></sup>platform, enabling a focused genomic approach in immunology.<sup></sup> </p> <strong>Availability:</strong> All raw data and information can be accessed from<sup></sup>http://refdic.rcai.riken.jp/. The microarray data is also available<sup></sup>at http://cibex.nig.ac.jp/<sup></sup>and http://www.ebi.ac.uk/pride/ under PRIDE accession numbers<sup></sup>2354–2378 and 2414. under CIBEX accession no. CBX19, <p> </p>
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