GEO DataSets

(Submitter supplied) HLA-DR-lacking HSPCs [HLA-DR(-) HSPCs] were detected in aplastic anemia (AA) patients with HLA-DR15. HLA-DR(-) HSPCs may evade the attack by CD4+ T-cells recognizing the autoantigen presented by HLA-DR15. The goal of this study is to clarify the immune escape mechanisms from antigen-specific T-cells by comparing the trranscriptome profile of HLA-DR(+) HSPCs and HLA-DR(-) HSPCs.

Organism:

Homo sapiens

Type:

Expression profiling by SAGE

Platform:

GPL24676

6 Samples

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(Submitter supplied) To identify genes express in earliest stage of fruiting body initiation in Coprinopsis cinerea, strain #326 (AmutBmut haploid fruiting strain), genes expressed at 0, 0.5, 1, 3h after light exposure were compared by Super-SAGE Approximately, 1 million tags were sequenced from each mycelial sample to obtain 65,535 unique tags. First, we made matches between the tags and predicted genes of the WT strain, and 24.4% tags matched to predicted genes. more...

Organism:

Coprinopsis cinerea

Type:

Expression profiling by SAGE

Platform:

GPL23540

4 Samples

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(Submitter supplied) Comparison of transcriptome data in fed and fasted conditions of zebrafish (Danio rerio) and rainbow trout (Oncorhynchus mykiss) anterior intestine using the serial analysis of gene expression (SAGE) method was done in a strategy to identify key regulated genes at the transcript level and to allow the identification of activated/deactivated pathways after feeding.

Organism:

Danio rerio; Oncorhynchus mykiss

Type:

Expression profiling by SAGE

Platforms:

GPL3209 GPL13690 GPL13689

4 Samples

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(Submitter supplied) The experiments were designed to gain insight into the gene expression of conventional and unconventional murine T cell subsets in the steady state and upon activation

Organism:

Mus musculus

Type:

Expression profiling by SAGE

Platform:

GPL11

5 Samples

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(Submitter supplied) Despite a considerable literature concerning the molecular pathogenesis of pituitary tumors, the mechanisms of pituitary tumors development and progression remain unknown. Four SAGE cDNA libraries were constructed using a pool of mRNA obtained from five GH-, two ACTH-secreting, and four non secreting pituitary tumors (NS), and three normal pituitaries from patients who had accidental death, using I-SAGE kit (Invitrogen). more...

Organism:

Homo sapiens

Type:

Expression profiling by SAGE

Platform:

GPL4

4 Samples

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(Submitter supplied) Oral susceptibility of Aedes aegypti mosquitoes to dengue viruses varies between different Aedes species and strains. However, the midgut-specific transcriptional profile that may produce this variation is presently obscure and was the subject of our investigation. The variation in active expression between dengue-2 susceptible (SUS) and refractory (REF) mosquitoes was investigated during the first critical 96 hours after infection Transcriptional profiles were mined from respective guts using the serial analysis of gene expression technique (SAGE) and libraries constructed from midguts obtained from mosquitoes that received a dengue-2 infected blood meal (DENV-2), a non infected blood meal (naive) or a 5% sucrose meal (SM). more...

Organism:

Aedes aegypti

Type:

Expression profiling by SAGE

Platform:

GPL8061

5 Samples

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(Submitter supplied) The interaction of Cryptococcus neoformans with phagocytic cells of the innate immune system is a key step in disseminated disease leading to meningoencephalitis in immunocompromised individuals. Transcriptional profiling of cryptococcal cells harvested from cell culture medium or from macrophages found differential expression of metabolic and other functions during fungal adaptation to the intracellular environment by SAGE analysis. more...

Organism:

Cryptococcus neoformans var. grubii H99

Type:

Expression profiling by SAGE

Platform:

GPL15941

2 Samples

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(Submitter supplied) In order to study the effect of light on gene expression in Schizophyllum commune, genome wide gene expression was analysed in 4-day-old monokaryotic and dikaryotic wild type colonies, grown either in light or in darkness.

Organism:

Schizophyllum commune

Type:

Expression profiling by SAGE

Platform:

GPL10299

4 Samples

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(Submitter supplied) In order to study changes in gene expression during mushroom development in Schizophyllum commune, genome wide gene expression was analysed in 4 developmental stages: vegetative mycelium, stage I aggregates, stage II primordia and mature mushrooms. In order to study the effects of absence of expression of sc3 and sc4, genome-wide expression was analysed in a dikaryon in which those genes have been inactivated by targeted gene deletion.

Organism:

Schizophyllum commune

Type:

Expression profiling by SAGE

Platform:

GPL10299

5 Samples

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(Submitter supplied) We identify the tetraspanin CD82 as the recognition site for xenogeneic endothelial cells independently of Gala1,3-gal structures. We demonstrate that in contrast to undifferentiated cells, differentiated promyelocytic cell lines (HL-60, THP-1 and KG-1) are capable of recognizing xenogeneic porcine endothelial cells in a calcium-dependent manner. We used serial analysis of gene expression (SAGE) to identify the differentially expressed transcripts in these cell lines. more...

Organism:

Homo sapiens

Type:

Expression profiling by SAGE

Platform:

GPL1485

5 Samples

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(Submitter supplied) Phosphorus (P) is a critical driver of phytoplankton growth and ecosystem structure and function in the ocean. Diatoms are an abundant and widespread functional group of phytoplankton that are responsible for significant amounts of primary production in the ocean, however there has not been a comprehensive study of diatom physiological responses to P deficiency. Here, we coupled deep sequencing of transcript tags and quantitative proteomic analysis from the diatom Thalassiosira pseudonana grown under P-replete and P-deficient conditions. more...

Organism:

Thalassiosira pseudonana CCMP1335

Type:

Expression profiling by SAGE

Platform:

GPL13316

2 Samples

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(Submitter supplied) HTLV-1 is the etiologic agent of HTLV-1 associated myelopathy/tropical spastic paraparesis (HAM/TSP). CD8+ T cells may contribute to the protection or development of HAM/TSP. In this study we used SAGE to assess gene expression profiles of CD8+ T cells isolated from HTLV-1 asymptomatic carriers (HAC) and from HAM/TSP patients, in order to identify genes involved in the HAM/TSP development. Analysis of SAGE was conducted by pooling samples according to clinical status. more...

Organism:

Homo sapiens

Type:

Expression profiling by SAGE

Platform:

GPL4

2 Samples

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(Submitter supplied) The rice blast fungus Magnaporthe oryzae is a major constraint to the world food security. To study the intracellular mechanism involved in its pathogenic morphogenesis, digital gene expression tag profiling was used to compare a previously generated temperature sensitive mutant, T146, which stopped pathogenic morphogenesis at 33°C, with its related wide type, Guy11. 416 genes were detected as differential expressed genes, 26 of which were specifically expressed in Guy11 but stopped expression in the mutant. more...

Organism:

Pyricularia grisea

Type:

Expression profiling by SAGE

Platform:

GPL15220

2 Samples

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(Submitter supplied) Oral epithelial dysplasias are believed to progress through a series of histopathological stages; from mild to severe dysplasia, to carcinoma in situ, and finally to invasive OSCC. Underlying this change in histopathological grade are gross chromosome alterations and changes in gene expression of both protein-coding genes and non-coding RNAs. Recent papers have described associations of aberrant expression of microRNAs, one class of non-coding RNAs, with oral cancer. more...

Organism:

Homo sapiens

Type:

Expression profiling by SAGE

Platform:

GPL4

10 Samples

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(Submitter supplied) This study describes the application of the LongSAGE methodology to study the gene expression profile in Leishmania infantum chagasi. A tag library was created using the LongSAGE method and consisted of 14,208 tags of 17 bases. Of these, 8,427 (59.3%) were distinct. BLAST research of the 1,645 most abundant tags showed that 12.8% of them identified the coding sequences of genes, while 82% (1,349/1,645) identified one or more genomic sequences that did not correspond with open reading frames. more...

Organism:

Leishmania chagasi

Type:

Expression profiling by SAGE

Platform:

GPL11414

1 Sample

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(Submitter supplied) Dengue viruses (DENV) are generally maintained in a cycle which requires horizontal transmission via their arthropod vector, Ae. Aegypti, to the vertebrate host. One important consequence of this process is the interference of these arboviruses with both invertebrate and vertebrate immune systems. While infection of vertebrates causes disease, the presence of DENV gives rise to life-long, persistent infection in mosquitoes. more...

Organism:

Aedes aegypti

Type:

Expression profiling by SAGE

Platform:

GPL10360

2 Samples

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(Submitter supplied) The inner ear arises from multipotent placodal precursors that are gradually committed to the otic fate and further differentiate into all inner ear cell types, with the exception of a few neural crest-derived cells. The otocyst has a pivotal role during inner ear development: otic progenitor cells sub-compartmentalize into non-sensory regions and regions giving rise to prosensory domains where subsequently also hair cells differentiate. more...

Organism:

Gallus gallus

Type:

Expression profiling by SAGE

Platform:

GPL1477

1 Sample

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(Submitter supplied) To identify functions that distinguish the posterior and median cells producing fibroin and sericin in the silk gland of Bombyx mori, serial analysis of gene expression (SAGE) profiles from both silk gland regions were analyzed and compared. The construction of a B. mori reference tag collection extracted from a set of 38000 Bombyx EST sequenced from the 3’ side, helped annotating the SAGE libraries. more...

Organism:

Bombyx mori

Type:

Expression profiling by SAGE

Platform:

GPL2095

2 Samples

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(Submitter supplied) Using the RL-SAGE method (Gowda et al. 2004), a maize leaf longSAGE library (cv. inbred line B73) was constructed. Leaf tissues were harvested from 4-week old B73 plants for RNA isolation. The conditions in the growth chamber were 12 h light (500 µmol photons m-2 sec-1), 20oC at night, 26oC in the day and 85% relative humidity. A total of 44,870 unique tags (17 bases +CATG) were identified from 232,948 individual tags in the maize leaf library.

Organism:

Zea mays

Type:

Expression profiling by SAGE

Platform:

GPL1462

1 Sample

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(Submitter supplied) Arabidopsis thaliana (Col-4) aerial tissue collected from 14-day old plants. Grown under sterile conditions at 22 degrees Celsius and 125 uE light on 0.5xMS media.

Organism:

Arabidopsis thaliana

Type:

Expression profiling by SAGE

Platform:

GPL25

1 Sample

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