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Publication Metadata only Cassava (Manihot esculenta) transcriptome analysis in response to infection by the fungus Colletotrichum gloeosporioides using an oligonucleotide-DNA microarray(2016-07-01) Yoshinori Utsumi; Maho Tanaka; Atsushi Kurotani; Takuhiro Yoshida; Keiichi Mochida; Akihiro Matsui; Manabu Ishitani; Supajit Sraphet; Sukhuman Whankaew; Thipa Asvarak; Jarunya Narangajavana; Kanokporn Triwitayakorn; Tetsuya Sakurai; Motoaki Seki; Riken; Centro Internacional de Agricultura Tropical; Mahidol University; Multidisciplinary Science Cluster; Japan Science and Technology Agency; Yokohama City Universityestablished a cassava oligonucleotide-DNA microarray representing 59,079 probes corresponding to approximately 30,000 genes based on original expressed sequence tags and RNA-seq information from cassava, and applied it to investigate the molecular mechanisms... of resistance to fungal infection using two cassava cultivars, Huay Bong 60 (HB60, resistant to CAD) and Hanatee (HN, sensitive to CAD). Based on quantitative real-time reverse transcription PCR and expression profiling by the microarray, we showedPublication Metadata only Cryptococcus gattii virulence composite: Candidate genes revealed by microarray analysis of high and less virulent Vancouver Island outbreak strains(2011-02-01) Popchai Ngamskulrungroj; Jennifer Price; Tania Sorrell; John R. Perfect; Wieland Meyer; The University of Sydney; Duke University School of Medicine; Mahidol Universityvirulent (R272), that were identified from the Vancouver outbreak. By expression microarray analys is, 202 genes showed at least a 2-fold difference in expression with 108 being up- and 94 being down-regulated in strain R265 compared with strain R272... in the regulation of mitosis and ergosterol biosynthesis were suppressed. In vitro phenotypic studies and transcription analysis confirmed the microarray results. Gene disruption of LAC1 and MPK1 revealed defects in melanin synthesis and cell wall integrityPublication Metadata only Leptospire genomic diversity revealed by microarray-based comparative genomic hybridization(2012-05-01) Broderick Eribo; Sirima Mingmongkolchai; Tingfen Yan; Padunsri Dubbs; Karen E. Nelson; Howard University; Mahidol University; J. Craig Venter InstituteComparative genomic hybridization was used to compare genetic diversity of five strains of Leptospira (Leptospira interrogans serovars Bratislava, Canicola, and Hebdomadis and Leptospira kirschneri serovars Cynopteri and Grippotyphosa). The array was designed based on two available sequenced Leptospira reference genomes, those of L. interrogans serovar Copenhageni and L. interrogans serovar Lai. A comparison of genetic contents showed that L. interrogans serovar Bratislava was closest to the reference genomes while L. kirschneri serovar Grippotyphosa had the least similarity to the reference genomes. Cluster analysis indicated that L. interrogans serovars Bratislava and Hebdomadis clustered together first, followed by L. interrogans serovar Canicola, before the two L. kirschneri strains. Confirmed/potential virulence factors identified in previous research were also detected in the tested strains. © 2012, American Society for Microbiology.Publication Metadata only Common transcriptional programs and the role of chemokine (C-C MOTIF) Ligand 20 (CCL20) in cell migration of cholangiocarcinoma(2020-01-01) Hay Mar Win Maung; Waraporn Chan-On; Nawapol Kunkeaw; Prasong Khaenam; Mahidol Universitynumber of microarray data published todays can be a powerful resource for the discovery of biomarkers to tackle challenges in the management of CCA. This study analyzed multiple microarray datasets to identify the common transcriptional networks in CCA... and select a possible biomarker for functional study in CCA cell lines. A systematic searching identified 4 microarray datasets from Gene Expression Omnibus (GEO) repository and PubMed articles.Differential expression analysis between tumor and normal tissuesPublication Metadata only Comparison of gene expression profiles between human erythroid cells derived from fetal liver and adult peripheral blood(2018-01-01) Amornrat Tangprasittipap; Pavita Kaewprommal; Orapan Sripichai; Nuankanya Sathirapongsasuti; Chonthicha Satirapod; Philip J. Shaw; Jittima Piriyapongsa; Suradej Hongeng; Faculty of Medicine, Ramathibodi Hospital, Mahidol University; Mahidol University; Thailand National Center for Genetic Engineering and Biotechnology. After 8 days of culture, erythroid cell populations were isolated by flow cytometry. Gene expression in the FL- and AB-derived cells was studied by Affymetrix microarray and reverse-transcription quantitative PCR. The microarray data were combined... up-regulated and 329 adult up-regulated genes were identified from microarray data generated in this study. Five hundred ninety-nine fetal up-regulated and 284 adult up-regulated genes with reproducible patterns between this and a previous study werePublication Metadata only Molecular analysis of Culex quinquefasciatus larvae responses to Lysinibacillus sphaericus bin toxin(2017-04-01) Chontida Tangsongcharoen; Natapong Jupatanakul; Boonhiang Promdonkoy; George Dimopoulos; Panadda Boonserm; Mahidol University; Johns Hopkins Bloomberg School of Public Health; Thailand National Center for Genetic Engineering and Biotechnologyremain unexplored. We used whole-genome microarray-based transcriptome analysis to better understand how Culex larvae respond to Bin toxin treatment at the molecular level. Our analyses of Culex quinquefasciatus larvae transcriptome changes at 6, 12... apoptosis and cellular detoxification including autophagic processes and lysosomal compartments. This study is, to our knowledge, the first microarray analysis of Bin toxin-induced transcriptional responses in Culex larvae, providing a basis for an in-depthPublication Metadata only Genomic acquisition of a capsular polysaccharide virulence cluster by non-pathogenic Burkholderia isolates(2010-08-27) Bernice Meng Qi Sim; Narisara Chantratita; Wen Fong Ooi; Tannistha Nandi; Ryan Tewhey; Vanaporn Wuthiekanun; Janjira Thaipadungpanit; Sarinna Tumapa; Pramila Ariyaratne; Wing Kin Sung; Xiao Hui Sem; Hui Hoon Chua; Kalpana Ramnarayanan; Chi Ho Lin; Yichun Liu; Edward J. Feil; Mindy B. Glass; Gladys Tan; Sharon J. Peacock; Patrick Tan; Genome Institute of Singapore; Mahidol University; Scripps Research Institute; National University of Singapore; National Cancer Centre, Singapore; DSO National Laboratories; University of Bath; Centers for Disease Control and Prevention; University of Cambridge; Duke-NUS Graduate Medical School Singapore. thailandensis genomic variation, we profiled 50 isolates using a pan-genome microarray comprising genomic elements from 28 Burkholderia strains and species. Results: Of 39 genomic regions variably present across the B. thailandensis strains, 13 regions... similar cluster in B. pseudomallei that is essential for virulence in mammals; presence of this cluster was confirmed by whole genome sequencing of a representative variant strain (B. thailandensis E555). Both wholegenome microarray and multi-locusPublication Metadata only Analysis of ultra low genome conservation in Clostridium difficile(2010-12-20) Joy Scaria; Lalit Ponnala; Tavan Janvilisri; Weiwei Yan; Lukas A. Mueller; Yung Fu Chang; Cornell University; Mahidol University; Boyce Thompson Institute for Plant ResearchMicroarray-based comparative genome hybridisations (CGH) and genome sequencing of Clostridium difficile isolates have shown that the genomes of this species are highly variable. To further characterize their genome variation, we employed integrationPublication Metadata only RIKEN Cassava Initiative: Establishment of a Cassava Functional Genomics Platform(2012-03-01) Yoshinori Utsumi; Tetsuya Sakurai; Yoshimi Umemura; Sarah Ayling; Manabu Ishitani; Jarunya Narangajavana; Punchapat Sojikul; Kanokporn Triwitayakorn; Minami Matsui; Ri ichiroh Manabe; Kazuo Shinozaki; Motoaki Seki; Riken; Centro Internacional de Agricultura Tropical; Mahidol Universityto establish a cassava functional genomics platform, which includes full-length cDNAs, DNA microarrays, transformation capabilities, and a searchable database in collaboration with the International Center for Tropical Agriculture (CIAT) of Colombia and MahidolPublication Metadata only Imiquimod suppresses propagation of herpes simplex virus 1 by upregulation of cystatin a via the adenosine receptor A1pathway(2012-10-01) Yuji Kan; Tamaki Okabayashi; Shin Ichi Yokota; Soh Yamamoto; Nobuhiro Fujii; Toshiharu Yamashita; Sapporo Medical University School of Medicine; Mahidol Universitycells. We analyzed alternation of gene expression by treatment with imiquimod using microarray analysis. Neither type I IFNs, nor TLRs, nor IFN-inducible antiviral genes were induced in imiquimod-treated FL cells. Cystatin A, a host cysteine protease