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Links from GEO DataSets

Items: 20

1.

The ZSWIM8 ubiquitin ligase mediates target-directed microRNA degradation [dataset 4]

(Submitter supplied) MicroRNAs (miRNAs) associate with Argonaute (AGO) proteins to direct widespread post-transcriptional gene repression. Although association with AGO typically protects miRNAs from nucleases, extensive pairing to some unusual target RNAs can trigger miRNA degradation. Here we found that this target-directed miRNA degradation (TDMD) required the ZSWIM8 Cullin-RING E3 ubiquitin ligase. This and other findings suggested and supported a mechanistic model of TDMD in which target-directed proteolysis of AGO by the ubiquitin–proteasome pathway exposes the miRNA for degradation. more...
Organism:
Caenorhabditis elegans
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL18245
6 Samples
Download data: TXT
Series
Accession:
GSE163389
ID:
200163389
2.

The ZSWIM8 ubiquitin ligase mediates target-directed microRNA degradation [dataset 1]

(Submitter supplied) MicroRNAs (miRNAs) associate with Argonaute (AGO) proteins to direct widespread post-transcriptional gene repression. Although association with AGO typically protects miRNAs from nucleases, extensive pairing to some unusual target RNAs can trigger miRNA degradation. Here we found that this target-directed miRNA degradation (TDMD) required the ZSWIM8 Cullin-RING E3 ubiquitin ligase. This and other findings suggested and supported a mechanistic model of TDMD in which target-directed proteolysis of AGO by the ubiquitin–proteasome pathway exposes the miRNA for degradation. more...
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL16791
12 Samples
Download data
Series
Accession:
GSE163393
ID:
200163393
3.

The ZSWIM8 ubiquitin ligase mediates target-directed microRNA degradation [datatset 7]

(Submitter supplied) MicroRNAs (miRNAs) associate with Argonaute (AGO) proteins to direct widespread post-transcriptional gene repression. Although association with AGO typically protects miRNAs from nucleases, extensive pairing to some unusual target RNAs can trigger miRNA degradation. Here we found that this target-directed miRNA degradation (TDMD) required the ZSWIM8 Cullin-RING E3 ubiquitin ligase. This and other findings suggested and supported a mechanistic model of TDMD in which target-directed proteolysis of AGO by the ubiquitin–proteasome pathway exposes the miRNA for degradation. more...
Organism:
Homo sapiens; Mus musculus
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL16791 GPL17021
29 Samples
Download data: TXT
Series
Accession:
GSE163392
ID:
200163392
4.

The ZSWIM8 ubiquitin ligase mediates target-directed microRNA degradation [dataset 6]

(Submitter supplied) MicroRNAs (miRNAs) associate with Argonaute (AGO) proteins to direct widespread post-transcriptional gene repression. Although association with AGO typically protects miRNAs from nucleases, extensive pairing to some unusual target RNAs can trigger miRNA degradation. Here we found that this target-directed miRNA degradation (TDMD) required the ZSWIM8 Cullin-RING E3 ubiquitin ligase. This and other findings suggested and supported a mechanistic model of TDMD in which target-directed proteolysis of AGO by the ubiquitin–proteasome pathway exposes the miRNA for degradation. more...
Organism:
Homo sapiens
Type:
Other
Platform:
GPL16791
2 Samples
Download data: TXT
Series
Accession:
GSE163391
ID:
200163391
5.

The ZSWIM8 ubiquitin ligase mediates target-directed microRNA degradation [dataset 5]

(Submitter supplied) MicroRNAs (miRNAs) associate with Argonaute (AGO) proteins to direct widespread post-transcriptional gene repression. Although association with AGO typically protects miRNAs from nucleases, extensive pairing to some unusual target RNAs can trigger miRNA degradation. Here we found that this target-directed miRNA degradation (TDMD) required the ZSWIM8 Cullin-RING E3 ubiquitin ligase. This and other findings suggested and supported a mechanistic model of TDMD in which target-directed proteolysis of AGO by the ubiquitin–proteasome pathway exposes the miRNA for degradation. more...
Organism:
Drosophila melanogaster
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL17275
12 Samples
Download data: TXT
Series
Accession:
GSE163390
ID:
200163390
6.

The ZSWIM8 ubiquitin ligase mediates target-directed microRNA degradation [dataset3]

(Submitter supplied) MicroRNAs (miRNAs) associate with Argonaute (AGO) proteins to direct widespread post-transcriptional gene repression. Although association with AGO typically protects miRNAs from nucleases, extensive pairing to some unusual target RNAs can trigger miRNA degradation. Here we found that this target-directed miRNA degradation (TDMD) required the ZSWIM8 Cullin-RING E3 ubiquitin ligase. This and other findings suggested and supported a mechanistic model of TDMD in which target-directed proteolysis of AGO by the ubiquitin–proteasome pathway exposes the miRNA for degradation. more...
Organism:
Homo sapiens; Drosophila melanogaster
Type:
Non-coding RNA profiling by high throughput sequencing
Platforms:
GPL16791 GPL17275
12 Samples
Download data: TXT
Series
Accession:
GSE163388
ID:
200163388
7.

The ZSWIM8 ubiquitin ligase mediates target-directed microRNA degradation [dataset 2]

(Submitter supplied) MicroRNAs (miRNAs) associate with Argonaute (AGO) proteins to direct widespread post-transcriptional gene repression. Although association with AGO typically protects miRNAs from nucleases, extensive pairing to some unusual target RNAs can trigger miRNA degradation. Here we found that this target-directed miRNA degradation (TDMD) required the ZSWIM8 Cullin-RING E3 ubiquitin ligase. This and other findings suggested and supported a mechanistic model of TDMD in which target-directed proteolysis of AGO by the ubiquitin–proteasome pathway exposes the miRNA for degradation. more...
Organism:
Mus musculus; Homo sapiens
Type:
Non-coding RNA profiling by high throughput sequencing
Platforms:
GPL16791 GPL17021
28 Samples
Download data: TXT
Series
Accession:
GSE163387
ID:
200163387
8.

The ZSWIM8 ubiquitin ligase mediates target-directed microRNA degradation

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Caenorhabditis elegans; Drosophila melanogaster; Mus musculus; Homo sapiens
Type:
Non-coding RNA profiling by high throughput sequencing; Expression profiling by high throughput sequencing; Other
4 related Platforms
101 Samples
Download data: TXT
Series
Accession:
GSE160304
ID:
200160304
9.

A ubiquitin ligase mediates target-directed microRNA decay independently of tailing and trimming [small RNA-seq]

(Submitter supplied) MicroRNAs (miRNAs) act in concert with Argonaute (AGO) proteins to broadly repress mRNA targets. After AGO loading, miRNAs generally exhibit slow turnover. An important exception occurs when miRNAs encounter targets with extensive complementarity, which can trigger a process termed target-directed microRNA degradation (TDMD). Prevailing models of TDMD invoke miRNA tailing and trimming as an essential step in the decay mechanism. more...
Organism:
Mus musculus; Homo sapiens
Type:
Non-coding RNA profiling by high throughput sequencing
Platforms:
GPL18573 GPL19057
18 Samples
Download data: XLSX
Series
Accession:
GSE158025
ID:
200158025
10.

A ubiquitin ligase mediates target-directed microRNA decay independently of tailing and trimming

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens; Mus musculus
Type:
Non-coding RNA profiling by high throughput sequencing; Other
Platforms:
GPL19057 GPL18573
46 Samples
Download data
Series
Accession:
GSE151517
ID:
200151517
11.

A ubiquitin ligase mediates target-directed microRNA decay independently of tailing and trimming [TDMD]

(Submitter supplied) MicroRNAs (miRNAs) act in concert with Argonaute (AGO) proteins to broadly repress mRNA targets. After AGO loading, miRNAs generally exhibit slow turnover. An important exception occurs when miRNAs encounter targets with extensive complementarity, which can trigger a process termed target-directed microRNA degradation (TDMD). Prevailing models of TDMD invoke miRNA tailing and trimming as an essential step in the decay mechanism. more...
Organism:
Homo sapiens
Type:
Other
Platform:
GPL18573
16 Samples
Download data: TXT
Series
Accession:
GSE151516
ID:
200151516
12.

A ubiquitin ligase mediates target-directed microRNA decay independently of tailing and trimming [miRNA-seq]

(Submitter supplied) MicroRNAs (miRNAs) act in concert with Argonaute (AGO) proteins to broadly repress mRNA targets. After AGO loading, miRNAs generally exhibit slow turnover. An important exception occurs when miRNAs encounter targets with extensive complementarity, which can trigger a process termed target-directed microRNA degradation (TDMD). Prevailing models of TDMD invoke miRNA tailing and trimming as an essential step in the decay mechanism. more...
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL18573
12 Samples
Download data: CSV
Series
Accession:
GSE151396
ID:
200151396
13.

AGO2 protects Drosophila siRNAs and microRNAs from target-directed degradation, even in the absence of 2′-O-methylation

(Submitter supplied) Target-directed degradation (TDD) of microRNAs (miRNAs) plays an important role in shaping miRNA abundances across bilateria. Some endogenous small interfering RNAs (siRNAs) of Drosophila cells have target sites resembling those that trigger miRNA TDD, raising the question as to whether they too might undergo such regulation. Here, we find that at least seven of these siRNAs are indeed sensitive to TDD when loaded into AGO1, the Argonaute paralog that preferentially associates with miRNAs. more...
Organism:
Drosophila melanogaster
Type:
Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing; Other
Platform:
GPL17275
36 Samples
Download data: CSV, TXT
Series
Accession:
GSE163938
ID:
200163938
14.

ZSWIM8 destabilizes many murine microRNAs and is required for proper embryonic growth and development

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing
Platform:
GPL24247
101 Samples
Download data: MTX, TSV, TXT
Series
Accession:
GSE231450
ID:
200231450
15.

The effect of ZSWIM8 knockout on RNA levels in tissues of E18.5 mouse embryos [scRNA-seq]

(Submitter supplied) MicroRNAs (miRNAs) pair to sites in mRNAs to direct the degradation of these RNA transcripts. Conversely, certain RNA transcripts can direct the degradation of particular miRNAs. This target-directed miRNA degradation (TDMD) requires the ZSWIM8 E3 ubiquitin ligase. Here, we report the function of ZSWIM8 in the mouse embryo. Zswim8–/– embryos were smaller than their littermates and died near the time of birth. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24247
5 Samples
Download data: MTX, TSV
Series
Accession:
GSE231449
ID:
200231449
16.

The effect of ZSWIM8 knockout on miRNA levels in tissues of E18.5 mouse embryos [sRNA-seq]

(Submitter supplied) MicroRNAs (miRNAs) pair to sites in mRNAs to direct the degradation of these RNA transcripts. Conversely, certain RNA transcripts can direct the degradation of particular miRNAs. This target-directed miRNA degradation (TDMD) requires the ZSWIM8 E3 ubiquitin ligase. Here, we report the function of ZSWIM8 in the mouse embryo. Zswim8–/– embryos were smaller than their littermates and died near the time of birth. more...
Organism:
Mus musculus
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL24247
48 Samples
Download data: TXT
Series
Accession:
GSE231448
ID:
200231448
17.

The effect of ZSWIM8 knockout on RNA levels in tissues of E18.5 mouse embryos [RNA-seq]

(Submitter supplied) MicroRNAs (miRNAs) pair to sites in mRNAs to direct the degradation of these RNA transcripts. Conversely, certain RNA transcripts can direct the degradation of particular miRNAs. This target-directed miRNA degradation (TDMD) requires the ZSWIM8 E3 ubiquitin ligase. Here, we report the function of ZSWIM8 in the mouse embryo. Zswim8-/- embryos were smaller than their littermates and died near the time of birth. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24247
48 Samples
Download data: TXT
Series
Accession:
GSE231447
ID:
200231447
18.

Structural Basis for Target-Directed MicroRNA Degradation

(Submitter supplied) We used HSUR1 – a small non-coding RNA from Herpesvirus saimiri that induces degradation of host miR-27 – to validate structural insights into target-directed miRNA degradation (TDMD). While performing systematic mutagenesis of HSUR1 we noticed that HSUR1 mutants exhibiting complementarity to the extreme 3' end of miR-27, lead to generation of extended miR-27 isoforms (isomiRs). These isomiRs likely represent failed products of TDMD and could mean that features of the pairing between the TDMD target and miRNA dictate which enzymes are recruited to modify the miRNA 3′ end. more...
Organism:
Homo sapiens
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL16791
15 Samples
Download data: XLSX
Series
Accession:
GSE130632
ID:
200130632
19.

Target-directed microRNA degradation broadly regulates microRNA expression and embryonic growth in mammals

(Submitter supplied) MicroRNAs (miRNAs) are post-transcriptional regulators of gene expression that play critical roles in development and disease. Target-directed miRNA degradation (TDMD), a pathway in which miRNAs that bind to specialized targets with extensive complementarity are rapidly decayed, has emerged as a potent mechanism of controlling miRNA levels. Nevertheless, the biological role and scope of miRNA regulation by TDMD in mammals remains poorly understood. more...
Organism:
Mus musculus
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL19057
48 Samples
Download data: CSV
Series
Accession:
GSE235065
ID:
200235065
20.

An Elongin-Cullin-SOCS-box Complex Regulates Stress-induced Serotonergic Neuromodulation Stress-induced Serotonergic Neuromodulation

(Submitter supplied) Neuromodulatory cells transduce environmental information into long lasting behavioral responses. However, the mechanisms governing how defined neuronal cell types influence behavioral plasticity are difficult to characterize. Here we adapted the Translating Ribosome Affinity Purification (TRAP) approach in C. elegans to profile ribosome-associated mRNAs from three major tissues and the neuromodulatory dopaminergic and serotonergic cells. more...
Organism:
Caenorhabditis elegans
Type:
Other
Platform:
GPL13657
20 Samples
Download data: XLSX
Series
Accession:
GSE106374
ID:
200106374
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