Microarray Data Explorer
Info Raw gene Expression data is sourced from GEO, and the appropriate db package for mapping probes to gene symbols was sourced from the Bioconductor AnnotationData packages. You can read more about microarray data here.
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GROUP CONDITION SAMPLES
Islets
GSM1010439 GSM1010440 GSM1010441 GSM1010442 GSM1010443 GSM1010444
GSM1010394 GSM1010395 GSM1010396 GSM1010397 GSM1010398 GSM1010399
GSM1010388 GSM1010389 GSM1010390 GSM1010391 GSM1010392 GSM1010393 GSM1010412 GSM1010413 GSM1010414
GSM1010427 GSM1010428 GSM1010429 GSM1010430 GSM1010431 GSM1010432
GSM1010421 GSM1010422 GSM1010423 GSM1010424 GSM1010425 GSM1010426
GSM1010400 GSM1010401 GSM1010402 GSM1010403 GSM1010404 GSM1010405
GSM1010433 GSM1010434 GSM1010435 GSM1010436 GSM1010437 GSM1010438
GSM1010406 GSM1010407 GSM1010408 GSM1010409 GSM1010410 GSM1010411 GSM1010415 GSM1010416 GSM1010417
GSM1010418 GSM1010419 GSM1010420
Description

Submission Date: Sep 27, 2012

Summary: Type 1 diabetes (T1D) is an autoimmune disease triggered by T cell reactivity to protein antigens produced by the β-cells. Here we present a chronological compendium of transcriptional profiles from islets of Langerhans isolated from non-obese diabetic (NOD) mice ranging from 2 wks up to diabetes and compared to controls. Parallel analysis was made of cellular components of the islets. Myeloid cells populated the islets early during development in all mouse strains. This was followed by a type I interferon signature detectable at 4-6 wks of age only in diabetes susceptible mice. Concurrently, CD4 T cells were found within islets, many in contact with intra-islet antigen presenting cells. Early cellular signs of islet reactivity were detected by six wks. By 8 wks, NOD islets contained all major leukocytes populations and an inflammatory gene signature. This work establishes the natural transcriptional signature of T1D and provides a resource for future research.

GEO Accession ID: GSE41203

PMID: 23555752

Description

Submission Date: Sep 27, 2012

Summary: Type 1 diabetes (T1D) is an autoimmune disease triggered by T cell reactivity to protein antigens produced by the β-cells. Here we present a chronological compendium of transcriptional profiles from islets of Langerhans isolated from non-obese diabetic (NOD) mice ranging from 2 wks up to diabetes and compared to controls. Parallel analysis was made of cellular components of the islets. Myeloid cells populated the islets early during development in all mouse strains. This was followed by a type I interferon signature detectable at 4-6 wks of age only in diabetes susceptible mice. Concurrently, CD4 T cells were found within islets, many in contact with intra-islet antigen presenting cells. Early cellular signs of islet reactivity were detected by six wks. By 8 wks, NOD islets contained all major leukocytes populations and an inflammatory gene signature. This work establishes the natural transcriptional signature of T1D and provides a resource for future research.

GEO Accession ID: GSE41203

PMID: 23555752

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Info Visualizations are precomputed using the Python package scanpy on the top 5000 most variable genes.

Precomputed Differential Gene Expression

Info Differential expression signatures are automatically computed using the limma R package. More options for differential expression are available to compute below.

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Differential Gene Expression Analysis
Info Differential expression signatures can be computed using DESeq2 or characteristic direction.
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