GEO series

Components of the ESCRT machinery act downstream of MLKL to regulate necroptotic cell death and its consequences

GSE85660 Mus musculus (mouse) Expression microarray 9 samples Submitted 2017/06/16 Platform GPL16570

At a glance

Expression microarray · mouse · 9 samples

What it is: Expression microarrayGene activity read on a chip (the older technology that RNA-seq replaced).
Organism: Mus musculus (mouse)
Samples: 9 samples
Data you can get: A processed expression table (series matrix) and the array files, from NCBI.

Summary (written by the submitters)

The activation of Mixed Lineage Kinase-Like (MLKL) by Receptor Interacting Protein Kinase-3 (RIPK3) results in plasma membrane (PM) disruption and a form of regulated necrosis, called necroptosis. Here we show that during necroptosis, MLKL-dependent calcium (Ca++) influx and phosphatidylserine (PS) exposure on the outer leaflet of the plasma membrane preceded loss of PM integrity.

Read the full summary ↓

Activation of MLKL results in the generation of broken, PM “bubbles” with exposed PS that are released from the surface of the otherwise intact cell. Components of the ESCRT machinery are required for formation of these bubbles, and act to sustain survival of the cell when MLKL activation is limited or reversed. Under conditions of necroptotic cell death, ESCRT controls the duration of plasma membrane integrity. As a consequence of the action of ESCRT, cells undergoing necroptosis can express chemokines and other regulatory molecules, and promote antigenic cross-priming of CD8+ T cells.

This dataset

Open GSE85660 in finder → Find more mouse microarray datasets →

Download · which file do I need?

Direct links to NCBI, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.

1 · Just have a look

Processed table

The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need.

All supplementary files ↗

3 · The original raw files

Whole study · RAW.tar

Everything the authors deposited as one archive (GSE85660_RAW.tar), including the raw array or instrument files. Can be large; the picker in step 2 takes just the samples you need.

Whole study · RAW.tar ↓

What the files usually look like: For arrays the series matrix is normally the normalised expression table you want; the raw array files (CEL and similar) are in the RAW.tar.

Also filed as BioProject PRJNA339009. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 28388412) ↗

Study design

A cohort of 9 individual samples

The grouping that defines any comparison lives in the sample characteristics, which GEO records separately from the titles.

How we read this: Sample titles run GYN001 … GYN009 and carry no group information.

Samples in this study

GSM2280456 GYN001
GSM2280457 GYN002
GSM2280458 GYN003
GSM2280459 GYN004
GSM2280460 GYN005
GSM2280461 GYN006
GSM2280462 GYN007
GSM2280463 GYN008
GSM2280464 GYN009

Datasets on a similar topic

GSE285111 Non-necroptotic MLKL function damages mitochondria and promotes hematopoietic stem cell aging 26 samples shares mlkl, necroptotic
GSE285110 Non-necroptotic MLKL function damages mitochondria and promotes hematopoietic stem cell aging [RNA-seq] 14 samples shares mlkl, necroptotic
GSE285109 Non-necroptotic MLKL function damages mitochondria and promotes hematopoietic stem cell aging [ATAC-seq] 12 samples shares mlkl, necroptotic
GSE276054 ESCRT-mediated machinery directly drives cardiac T-tubule formation 10 samples shares escrt, machinery
GSE275879 ESCRT-mediated machinery directly drives cardiac T-tubule formation 10 samples shares escrt, machinery
GSE240372 USP8 coordinates ESCRT-mediated membrane repair, xenophagy, and oxidative stress responses during Mycobacterium tuberculosis infection 40 samples shares escrt
GSE299620 cFLIP suppresses Caspase-1- and MLKL-independent perinatal lethality driven by autoprocessing impaired caspase-8 D387A 36 samples shares mlkl
GSE293219 Adipocyte-specific Mlkl knockout mitigates obesity-induced metabolic dysfunction by enhancing mitochondrial functions. 36 samples shares mlkl

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