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Xenograft mouse study in C57BL6/SCID mice using A431 cells

ABSTRACT: In this study four groups involving, Control arm, Rapamycin arm, Nimotuzumab arm and the Combination group were involved. Four tumors from each group was evaluated for microarray analysis they were the two largest and two smallest from each group. Agilent one-color experiment,Organism: Human ,Agilent-Custom Whole Genome Human 8x60k designed by Genotypic Technology Pvt. Ltd. (AMADID: 027114) , Labeling kit: Agilent Quick-Amp labeling Kit (p/n5190-0442)

ORGANISM(S): Homo sapiens

PROVIDER: GSE32333 | GEO | 2011/10/20

SECONDARY ACCESSION(S): PRJNA147267

REPOSITORIES: GEO

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Xenograft mouse study in C57BL6/SCID mice using A431 cells

Project description:In this study four groups involving, Control arm, Rapamycin arm, Nimotuzumab arm and the Combination group were involved. Four tumors from each group was evaluated for microarray analysis they were the two largest and two smallest from each group. Agilent one-color experiment,Organism: Human ,Agilent-Custom Whole Genome Human 8x60k designed by Genotypic Technology Pvt. Ltd. (AMADID: 027114) , Labeling kit: Agilent Quick-Amp labeling Kit (p/n5190-0442) 4 groups: control, rapamycin, nimotuzumab, and rapamycin and nimotuzumab

2011-10-19 | E-GEOD-32333 | biostudies-arrayexpress

Changes in gene expressions associated with egg diapause in multivoltine silkworm Bombyx mori

Project description:Changes in gene expressions associated with egg diapause in multivoltine silkworm Bombyx mori Agilent one-color experiment, Agilent-Custom : Bombyx mori 4x44k designed by Genotypic Technology Pvt. Ltd. (AMADID: 034793) , Labeling kit: Agilent Quick-Amp labeling Kit (p/n5190-0444)

2012-09-30 | E-GEOD-35622 | biostudies-arrayexpress

Xanthomonas oryzae pv. oryzicola (Indian Isolate) wild type and complented strains vs rpfF mutant grown under iron starved condition

Project description:Transcriptional profiling of DSF regulon under iron starvation in Xanthomonas oryzae pv. oryzicola (Xoc; BXOR1) using wild type, rpfF mutant and rpfF mutant with complementing plasmid pSC9. Cell-cell signalling mediated by quorum sensing molecule known as Diffusible signalling factor (DSF) is required for the virulence of Xanthomonas group of plant pathogens. The transcriptional profiling in this study is to elucidate the role of DSF in iron acquisition under the iron limitting environment which would lead to successful colonization and pathogenesis inside host. Agilent one-color experiment, Organism: Xanthamonus oryzicola, (AMADID-041087) Genotypic Technology Pvt. Ltd. designed Custom Xanthamonus oryzicola 8x15k Gene expresssion Array, Labeling kit: Agilent Quick-Amp labeling Kit (p/n5190-0442)

2015-01-02 | E-GEOD-53255 | biostudies-arrayexpress

Role of macrophages in invadopodia formation

Project description:The first experiment involved the DU-145 tumor cell samples cultured with or without macrophages. This experiment was planned with an aim to evaluate the gene expression changes that might occur in DU-145 cells when grown in proximity to macrophages as compared to DU145 cells being grown alone. Similarly, the second experiment, involved the macrophage samples cultured with or without the DU-145 cells. This experiment was planned with an aim to evaluate the gene expression changes that might occur in Macrophages when grown in proximity to DU-145 cells . Agilent one-color experiment, Organism: Human, Agilent-Custom Whole Genome Human 8x60k designed by Genotypic Technology Pvt. Ltd. (AMADID: 027114), Labeling kit: Agilent Quick-Amp labeling Kit (p/n5190-0442)

2012-03-08 | E-GEOD-36047 | biostudies-arrayexpress

Hippocampal response to Hypobaric Hypoxia

Project description:Sprague Dawley rats were exposed to Hypobaric Hypoxia for 1, 3 and 7 days followed isolation of Hippocampus. Microarray was performed utilizing RNA isolated from these samples. Each group included 5 animals. Agilent Rat Gene Expression 8X60K (AMADID: 028279) , Labeling kit: Agilent Quick-Amp labeling Kit (p/n5190-0442)

2016-03-01 | E-GEOD-66287 | biostudies-arrayexpress

Gene expression profiling of lithium stimulated human mesenchymal stem cells

Project description:Wnt signaling in essential for osteoblast differentiation and is activated by lithium via inhibition of glycogen synthase kinase 3beta. Although lithium has been shown to enhance osteoblast differentiation in mice models and accelerate bone repair, its effect in humans is not clear. Therefore, we performed gene expression profiling of human MSCs from 3 donors treated with lithium (5mM) for 7 days. Microarray profiling of lithium-stimulated hMSC revealed decreased expression of adipogenic genes (CEBPA, CMKLR1, HSD11B1) and genes involved in lipid biosynthesis. Interestingly, osteoclastogenic factors and immune responsive genes (IL7, IL8, CXCL1, CXCL12, CCL20) were also downregulated. Negative transcriptional regulators of the osteogenic program (TWIST1 and PBX1) were suppressed while genes involved in mineralization like CLEC3B and ATF4 were induced. These results suggest suppression of adipogenic program and induction of osteogenic genes. Agilent one-color experiment, Organism: Human, Agilent-Custom Whole Genome Human 4x44k designed by Genotypic Technology Pvt. Ltd. (AMADID: 025085), Labeling kit: Agilent Quick-Amp labeling Kit (p/n5190-0442)

2013-02-02 | E-GEOD-34747 | biostudies-arrayexpress

HIV gp120 modulates the vaginal transcriptome

Project description:During sexual transmission of HIV-1 from male to female partners, the vagina is the initial site of contact with HIV infected semen. The mechanism of HIV traversing the CD4 negative multi-layered stratified squamous epithelial barrier of the vagina to infect sub-epithelial susceptible immune cells, is hitherto unknown. HIV gp120 binds to several host proteins on vaginal epithelial cells. To gain an insight into the physiologic changes that may occur in vaginal epithelial cells in response to interactions with HIV gp120, and obtain an understanding of the molecular mechanisms by which HIV breaches the vaginal epithelium, a global snap shot of gene expression profiles in the vaginal epithelial cell line Vk2/E6E7, treated with HIV gp120 was determined. The vaginal epithelial cell line Vk2/E6E7 was treated with HIV gp120 (83nM) for 24 hr, and Agilent one colour, microarrays were performed. Agilent one-color experiment,Organism: Human ,Agilent-Custom Whole Genome Human 8x60k designed by Genotypic Technology Pvt. Ltd. (AMADID: 027114), Labeling kit: Agilent Quick-Amp labeling Kit (p/n5190-0442)

2014-03-01 | E-GEOD-44914 | biostudies-arrayexpress

Costimulation through costimulatory molecules (CD40 or CD86) Synergizes with TLR-2 in the Activation of Resting B Cells: A Novel BCR Independent Approach of B Cell Stimulation

Project description:Resting B cells were isolated from mice splenocytes. Briefly, single cell suspension was prepared and treated with B cell enrichment cocktail supplemented with biotinylated anti-CD43 Abs. The cells were then treated with same volume of streptavidin-magnetic beads and negatively selected on BD IMagnet. The purity of RB cells obtained was >98%, as established by flow cytometry (CD45R^+ CD19^+ CD43^- CD4^- CD8^- ). Purified cells were cross linked with anti-CD86 Abs or anti-CD40 Abs, washed and cultured for 4 hours in the presence or absence of Pam2CSK4. Cells were harvested and washed and treated with RNAlater and subjected to microarray analysis. Microarray was performed by Genotypic Technology Pvt. Ltd. (Bangalore, India; www.genotypic.co.in <http://www.genotypic.co.in/>). The samples for gene expression were labeled using Agilent Quick-Amp labelling kit (p/n5190-0442). The labeled cRNA samples were hybridized on to a Genotypic designed Custom Whole Genome Mouse 8x60k (AMADID No: 26986). Cy3-labeled samples (800 ng) were fragmented and hybridized. Fragmentation of labeled cRNA and hybridization were done using the gene expression hybridization kit of Agilent. Hybridization was carried out in Agilent's Surehyb Chambers at 65 C for 16h. The hybridized slides were washed using Agilent gene expression wash buffers and scanned using the Agilent microarray scanner, G2505C at 3 resolution. Data extraction from images was done using Feature extraction software v 10.5.1.1 of Agilent. Feature extracted data were analyzed using GeneSpring GX v 11 software from Agilent. Genes were classified based on the functional category and pathways using GeneSpringGX Software and Genotypic Biointerpreter-Biological Analysis Software. One-color experiment; Organism: Mus musculus; Custom Whole Genome Mouse 8x60k designed by Genotypic Technology Pvt. Ltd. (Agilent-026986); Labeling kit: Agilent Quick-Amp labeling Kit (p/n5190-0442)

2013-12-31 | E-GEOD-28517 | biostudies-arrayexpress

Global Transcriptome Analysis of Spermatogenically Regressed, Recrudescent, and Active Testis of Seasonally Breeding Wall Lizards Hemidactylus flaviviridis

Project description:Reptiles are phylogenically important group of animals as mammals are evolved from them. Clearly distinct phases of reproductive cycle in wall lizard enable us to study mechanisms regulating spermatogenesis. We have performed microarray hybridizations on mouse whole genome 60K gene chip using RNA from regressed, recrudescent and active phase of reproductive cycle. Microarray data was analyzed considering regressed phase as control. To the best of our knowledge, this is the first report of transcriptome analysis of whole testis of wall lizard from various phases of reproductive cycle. Microarray results reveal that maximum number of differential gene expression is in between regressed and recrudescent phase than in between recrudescent and active phase. The genes prominently expressed in recrudescent and active phase testis are cytoskeleton organization, cell growth and division, osmo-regulation, differentiation and apoptosis. The genes showing higher expression in regressed phase belonged to functional categories such as negative regulation of growth, repression of transcription, maintenance of stem cell niche and muscle related proteins. Summarily, this is first exploratory study profiling transcriptome of three drastically different conditions of wall lizard testis. This study will pave the way for deeper insight into gene regulatory mechanisms in spermatogenesis and evolution of spermatogene processes. Agilent one-color experiment,Organism: Mouse ,Agilent-Custom Whole Genome Mouse 8x60k designed by Genotypic Technology Pvt. Ltd. (AMADID: 026986) , Labeling kit: Agilent Quick-Amp labeling Kit (p/n5190-0442)

2013-03-01 | E-GEOD-36505 | biostudies-arrayexpress

Differential gene expression profile of y79 retinoblastoma cells in response to stress conditions

Project description:The Y79 retinoblastoma cells were exposed to oxidative stress conditions with hydrogen peroxide exposure. The differential gene expression profile on this condition was evaluated by comparing with untreated control Y79 cells. The cellular responses based on the differential gene expression was studied. One-color experiment,Organism: Human , Custom Whole Genome Human 8x60k designed by Genotypic Technology Pvt. Ltd. (Agilent-27114), Labeling kit: Agilent Quick-Amp labeling Kit (p/n5190-0442)

2011-03-11 | E-GEOD-27880 | biostudies-arrayexpress

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