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OsCAS: a comprehensive web-based annotation platform for rice microarray data
Qingyun Shi,Yijun Meng,Dijun Chen,Fei He,Haibin Gu,Ping Wu,Ming Chen 한국바이오칩학회 2010 BioChip Journal Vol.4 No.1
OsCAS (Oryza sativa Chip Annotation System) is a comprehensive web-based tool that analyzes the results of rice (Oryza sativa) microarray experiments and the potential relationships among genes. This platform is designed to facilitate the indepth exploration of microarray data with relatively high analysis efficiency. With a user-friendly web interface, OsCAS allows chip probe IDs as inputs to retrieve relevant information according to user’s designation. Public databases, such as GenBank, UniGene, Swiss-Prot, TIGR, KOME, KEGG, Gene Ontology, and miRBase, were integrated into our platform to cover gene information, protein features, metabolic pathways and regulatory factors in rice. Besides, OsCAS includes the reprocessed information from several analytical tools such as CSRDB and miRU to obtain deep insights into the primary annotations. OsCAS is time-cost-effective in annotating large sets of chip probe IDs, and can provide some precious hints for the biological experiment design. OsCAS runs on a Linux server and is accessible at http://bis.zju.edu.cn/oscas/.
Ningmei Chen,Buerbatu Song,Shuai Tang,Junqing He,Yijun Zhou,Jinchao Feng,Sha Shi,Xiaojing Xu 한국식물생명공학회 2018 Plant biotechnology reports Vol.12 No.5
The cuticle, composed primarily of wax and cutin, covers most plant aerial surfaces and plays a vital role in interactions between plants and their environment. Some ATP-binding cassette G subfamily (ABCG) members are involved in cuticular lipid molecule exportation to outside in the plant surface. Thellungiella salsugineum, a relative of Arabidopsis thaliana with a heavy cuticle, has extreme stress tolerance. TsABCG11, an ABCG transporter was cloned (GenBank accession number JQ389853), and its structure was studied. qRT-PCR showed that TsABCG11 expression varied in different organs of T. salsugineum and was upregulated under ABA, NaCl, drought and cold conditions. The rosette leaves from 4-week-old TsABCG11 overexpressed (OE) Arabidopsis plants displayed lower rates of water loss and decreased chlorophyll-extracted rates compared to wild-type plants. TsABCG11-OE plants also exhibited significantly increased total cuticular wax and cutin monomer amounts, mainly due to prominent changes in the C29, C31, and C33 alkanes in the wax and C18:2 dioic in cutin monomers, respectively. TsABCG11-OE seedlings exhibit lower root growth inhibition under 100 mM of NaCl or 1 μM of ABA than the wild type. Four-week-old TsABCG11-OE plants exhibited higher photosynthetic rates and water-use efficiency under cold stress (4 °C) than control plants. These results indicate that TsABCG11 plays an important role in cuticle lipid exportation and is involved in abiotic stresses, probably having a close relationship with extreme stress tolerance in T. salsugineum.
Flexible and Robust Transmission for Physical Layer Signaling of ATSC 3.0
Hongsil Jeong,Kyung-Joong Kim,Seho Myung,Jong-Woong Shin,Jinwoo Kim,Sung-Ik Park,Sunhyoung Kwon,Yijun Shi,Sang-Hyo Kim IEEE 2016 IEEE transactions on broadcasting Vol.62 No.1
<P>The physical layer [layer-1 (L1)] signaling (L1 signaling) of Advanced Television Systems Committee (ATSC) 3.0 is studied. In the new digital broadcasting system, ATSC 3.0, L1 signaling is designed to be more efficient but still robust compared with preceding standards such as DVB-T2. We introduce the error protection scheme of ATSC 3.0 in detail. Especially advanced methods newly employed in ATSC 3.0 are investigated with regard to its purpose and benefit in comparison to conventional DVB-T2.</P>