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accession-icon GSE36386
ZNF335 regulates stem cell proliferation and neuronal differentiation via Trithorax complex and REST/NRSF
  • organism-icon Mus musculus
  • sample-icon 1 Downloadable Sample
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Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

Microcephaly gene links trithorax and REST/NRSF to control neural stem cell proliferation and differentiation.

Sample Metadata Fields

Time

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accession-icon GSE5198
Transcriptional profiling of mouse ileum in response to colonization with a zebrafish or mouse gut microbiota
  • organism-icon Mus musculus
  • sample-icon 18 Downloadable Samples
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Description

We compared gene expression in the small intestine (ileum) of mice that were either (i) germ-free, (ii) colonized with a conventional mouse cecal microbiota, (iii) colonized with a conventional zebrafish gut microbiota, or (iv) colonized with Pseudomonas aeruginosa PAO1.

Publication Title

Reciprocal gut microbiota transplants from zebrafish and mice to germ-free recipients reveal host habitat selection.

Sample Metadata Fields

Specimen part

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accession-icon GSE19372
Expression time series during the differentiation of ventral motor neurons from embryonic stem cells
  • organism-icon Mus musculus
  • sample-icon 17 Downloadable Samples
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Description

The aim of this study is to profile gene expression dynamics during the in vitro differentiation of embryonic stem cells into ventral motor neurons. Expression levels were profiled using Affymetrix microarrays at six timepoints during in vitro differentiation: ES cells (Day 0), embryoid bodies (Day 2), retinoid induction of neurogenesis (Day 2 +8hours of exposure to retinoic acid), neural precursors (Day 3), progenitor motor neurons (Day 4), postmitotic motor neurons (Day 7).

Publication Title

Ligand-dependent dynamics of retinoic acid receptor binding during early neurogenesis.

Sample Metadata Fields

Cell line

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accession-icon GSE43710
Type I and type III interferons drive redundant amplification loops to induce a transcriptional signature in influenza-infected airway epithelia
  • organism-icon Mus musculus
  • sample-icon 40 Downloadable Samples
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Description

This SuperSeries is composed of the SubSeries listed below.

Publication Title

Type I and type III interferons drive redundant amplification loops to induce a transcriptional signature in influenza-infected airway epithelia.

Sample Metadata Fields

Specimen part

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accession-icon GSE43708
Expression data from Influenza A infected mouse primary tracheal epithelial cell cultures (MTEC), from wild-type, IFNAR1-/-, IL28Ra-/- and IFNAR1-/- IL28Ra-/- double ko
  • organism-icon Mus musculus
  • sample-icon 40 Downloadable Samples
  • Technology Badge Icon

Description

We used microarrays to detail the global programme of gene expression in response to Influenza A (PR8) infection

Publication Title

Type I and type III interferons drive redundant amplification loops to induce a transcriptional signature in influenza-infected airway epithelia.

Sample Metadata Fields

Specimen part

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accession-icon GSE9024
Gene activation by Rag-mediated DNA double strand breaks
  • organism-icon Mus musculus
  • sample-icon 20 Downloadable Samples
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Description

The objective is to identify genes that are differentially expressed following the introduction of DNA double strand breaks (DSBs) by the Rag proteins in murine pre-B cells. Cells lacking Artemis are used since the Rag-induced DSBs will not be repaired and, thus, will provide a continuous stimulus to the cell. Cells lacking Artemis and Atm are used to determine which gene expression changes depend on Atm and cells lacking Artemis that express an I kappa B alpha dominant negative are used to determine which gene expression changes depend on NFkB.

Publication Title

DNA double-strand breaks activate a multi-functional genetic program in developing lymphocytes.

Sample Metadata Fields

No sample metadata fields

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accession-icon GSE18308
FoxOs cooperatively regulate diverse pathways governing neural stem cell homeostasis
  • organism-icon Mus musculus
  • sample-icon 6 Downloadable Samples
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Description

FoxOs cooperatively regulate diverse pathways governing neural stem cell homeostasis

Publication Title

FoxOs cooperatively regulate diverse pathways governing neural stem cell homeostasis.

Sample Metadata Fields

Cell line

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refine.bio is a repository of uniformly processed and normalized, ready-to-use transcriptome data from publicly available sources. refine.bio is a project of the Childhood Cancer Data Lab (CCDL)

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Cite refine.bio

Casey S. Greene, Dongbo Hu, Richard W. W. Jones, Stephanie Liu, David S. Mejia, Rob Patro, Stephen R. Piccolo, Ariel Rodriguez Romero, Hirak Sarkar, Candace L. Savonen, Jaclyn N. Taroni, William E. Vauclain, Deepashree Venkatesh Prasad, Kurt G. Wheeler. refine.bio: a resource of uniformly processed publicly available gene expression datasets.
URL: https://www.refine.bio

Note that the contributor list is in alphabetical order as we prepare a manuscript for submission.

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