Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

15 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Upregulation of pro-apoptotic microRNA mir-125a following massive small bowel resection in rats

ABSTRACT: Upregulation of mir-125a suppresses the pro-survival protein Mcl1, producing the increase in apoptosis known to accompany the proliferative changes characteristic of intestinal adaptation. Our data highlight a potential role for microRNAs as mediators of the adaptive process and may facilitate the development of new therapeutic options for short bowel syndrome. Two-condition experiment: resected rat jejunum vs. pooled transected control, with dye-swaps.

ORGANISM(S): Rattus norvegicus

SUBMITTER: Jonathan Dreyfuss

PROVIDER: E-GEOD-26542 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Upregulation of proapoptotic microRNA mir-125a after massive small bowel resection in rats.

Balakrishnan Anita A Stearns Adam T AT Park Peter J PJ Dreyfuss Jonathan M JM Ashley Stanley W SW Rhoads David B DB Tavakkolizadeh Ali A

Annals of surgery 20120401 4

<h4>Objective</h4>Short bowel syndrome remains a condition of high morbidity and mortality, and current therapeutic options carry significant side effects. To identify new treatments we focused on postresection changes in microRNAs--short noncoding RNAs, which suppress target genes--and suggest a previously undiscovered role for microRNA-125a (mir-125a) in intestinal adaptation.<h4>Methods</h4>Rats underwent either 80% massive small bowel resection or transection and were harvested after 48 hour ...[more]

PMID: 22418008

Similar Datasets

MicroRNA miR-16 is anti-proliferative in enterocytes and exhibits diurnal rhythmicity in intestinal crypts

Project description:This is the first report to document circadian rhythmicity of specific microRNAs in rat jejunum. Our data provide a link between the anti-proliferative microRNA miR-16 and the intestinal proliferation rhythm and point to miR-16 as an important regulator of proliferation in jejunal crypts. This function may be essential to match proliferation and absorptive capacity with nutrient availability. Time course data with 7 time points and 3 replicates per time point. Each 2-color array is hybridized against a reference from time point 0, and dye swaps are included.

2010-08-13 | E-GEOD-20603 | biostudies-arrayexpress

Global miRNA transcriptomic profiling of permanent focal ischemia in an in vivo rat model

Project description:Focal ischemia is triggered by the sudden significant reduction of blood supply to the brain, as a result of either the rupture or occlusion by thrombus/embolism of a blood vessel in the brain. Permanent focal ischemia occurred when blood supply to a specific part of the brain is impeded without reperfusion. Despite major steps achieved in the elucidation of the patho-physiology of cerebral ischemia, the available therapeutic avenues for acute ischemic stroke remain scarce. Cell cycle re-activation has been revealed as a novel signaling pathway during permanent focal ischemia. As such, non-specific aurora kinase inhibitor ZM447439, has been injected intracranial-ventricularly 30min post-ischemia induction to determine its efficacy in reduction of neuronal damage in terms of infarct volume. miRNA microarray analysis was performed on Exiqon 5th generation - hsa, mmu & rno (Product no: 208300-A) to compliment our existing gene expression microarray data [GSE23651]. Arrays were run as dual colour (Hy3: Sample, and Hy5: Common sample reference pool). Right cortex RNA samples were collected at two time-points (8h and 24h )respectively for all three experimental conditions: Sham (n=4), vehicle (i.e. ischemic injury with i.c.v. injection 80% DMSO; n=4) and treatment (injury plus i.c.v.injection of 30mM ZM447439 in 80% DMSO; n=4). Supplementary file: Project_Summary_Report.txt The percentages listed in the top row are present-call rates, i.e. number of identified miRNAs compared to number of miRNAs on array.

2013-12-31 | E-GEOD-25556 | biostudies-arrayexpress

miRNA expression profiling of primary melanoma tumors

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2015-02-01 | E-GEOD-62372 | biostudies-arrayexpress

miRNA expression profiling of primary melanoma tumors (cohort I)

Project description:We performed global microRNA expression profiling of a cohort of primary melanoma patient samples linked to a well-annotated clinical database. The goal of this study was to identify microRNA that are associated to or correlated with various clinical parameters and patient outcomes. Candidate microRNA were identified for building prognostic models and functional testing. 92 primary melanoma (well-annotated with long clinical follow-up) and 9 congenital nevi samples were analyzed to Exiqon miRCURY two color arrays. The reference sample used was an equal combination of all samples analyzed. By this design, ratio data of test sample/reference is mean-centered data.

2015-02-01 | E-GEOD-62370 | biostudies-arrayexpress

miRNA expression profiling of primary melanoma tumors (cohort II)

Project description:We performed global microRNA expression profiling of a cohort of primary melanoma patient samples linked to a well-annotated clinical database. The goal of this study was to identify microRNA that are associated to or correlated with various clinical parameters and patient outcomes. Candidate microRNA were identified for building prognostic models and functional testing. 119 primary melanoma samples were analyzed in two color arrays. The reference sample used was an equal combination of all samples analyzed. By this design, ratio data of test sample/reference is mean-centered data.

2015-02-01 | E-GEOD-62371 | biostudies-arrayexpress

Dynamic time course miRNA profiling of human skeletal muscle cell differentiation.

Project description:The purpose of this study was to determine the miRNA expression profile of in vitro differentiation of human skeletal muscle cells and to couple changes in individual miRNA expression to transcriptional output of target genes. miRNA expression profiling at six different time points during the in vitro differentiation process of human skeletal muscle cells from six subjects. RNA was harvested from myoblasts before induction of differentiation and at every other day for 10 following days. Temporal, time-course design with paired analysis (6 subjects). Biological replicates: 6 at day 0, 6 at day 2, 6 at day 4, 6 at day 6, 6 at day 8, and 5 at day 10. One replicate vs common reference RNA pool per array.

2014-12-13 | E-GEOD-53383 | biostudies-arrayexpress

Global gene regulation in permanent focal ischemia in an in vivo rat model

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

2013-12-31 | E-GEOD-25676 | biostudies-arrayexpress

MicroRNA expression profiling of highly purified CD4+ human T cell subsets

Project description:The development and propagation of an adaptive immune response to an invading pathogen is a highly orchestrated process that involves the precise regulation of cytokine expression. Naïve CD4+ T lymphocytes give rise to T helper (Th) cell subsets with functions that are tailored to their respective roles in host defense. MicroRNAs are important regulators of most cellular processes, including many responses in the immune system. To identify novel microRNAs that might be important in human T helper cell differentiation to different subsets we purified T cell subsets from peripheral blood and performed microRNA arratys at Exiqon. Naïve, Th1, Th2, Th17 and Tregs were FACS-sorted ex-vivo from peripheral blood of 6-11 donors. Due to the very low amount of starting material total RNA from at least 6 different donors was pooled and anlaysed on the arrays. All samples were analyzed against a common reference, which was made by pooling together a small amount of total CD4+ cells from all donors.

2012-10-16 | E-GEOD-33946 | biostudies-arrayexpress

Microarray Analysis of microRNA Expression during Axolotl Limb Regeneration

Project description:The salamander microRNA expression between mid-bud limb regenerating blastemas (17 days post amputation) and non-regenerating stump tissues was compared by microarray analysis. LC Sciences arrays: Six paired samples were analyzed: three mid-bud 17dpa blastemas (bl), and three non-regenerating stumps (st). Three arrays were hybridized comparing two paired samples each time. Biological dye-swaps were made by labeling bl samples once with Cy3 and twice with Cy5; st samples were labeled accordingly twice with Cy5 and once with Cy3. Multiple arrays averaged into a single Sample record. Supplementary files: GSE29727_LC_MultiArray_SimpleNormalizedData.txt.gz GSE29727_LC_signal_ratio_mean_SD.txt.gz GSE29727_LC_t-Test_st-vs-bl.txt.gz Exiqon arrays: Six paired samples were analyzed: three mid-bud 17dpa blastemas (bl), and three non-regenerating stumps (st). Six arrays were hybridized comparing each sample labeled with Hy3 against a common reference sample made by pooling all the samples and labeling it with Hy5. Multiple arrays not averaged, represented as multiple Sample records. Supplementary file: GSE29727_Exiqon_matrix_complete.txt

2012-11-06 | E-GEOD-29727 | biostudies-arrayexpress

The microRNA expression profile of C2C12 cell upon 72 hours of BMP2 treatment

Project description:To identify osteoblast specific miRNAs that can contribute to osteoblastogenesis by post-transcriptionally regulates their targets, BMP2 are treated to C2C12 for 72 hours and performed miRNA microarray. C2C12 cells were treated with vehicles or BMP2 (300 ng/mL) supplemented alpha-MEM media for 72 days and total RNA was harvested and performed exiqon miRNA microarray. Duplicates were used for each condition. Dye swaps were done.

2012-05-02 | E-GEOD-37036 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data