poly (A)-binding protein I - GEO DataSets

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Select item 2002727451.

Identification of pathological pathways centered on circRNA dysregulation associated with irreversible progression of Alzheimer’s disease [circGigyf2KD]

(Submitter supplied) Background Circular RNAs (circRNAs) are highly stable regulatory molecules, often accumulated in the mammalian brain and thought to serve as “memory molecules” that govern the long process of aging. Mounting evidence demonstrated circRNA dysregulation in postmortem cortical regions of Alzheimer’s disease (AD) patients. However, whether and how circRNA dysregulation underlies AD progression remains unexplored. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL34290
6 Samples

Download data: TXT

Series

Accession:: GSE272745

ID:: 200272745

Select item 2002727442.

Identification of pathological pathways centered on circRNA dysregulation associated with irreversible progression of Alzheimer’s disease [5xFADHippocampus]

Organism:: Mus musculus

Type:: Non-coding RNA profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platform:: GPL34290
12 Samples

Download data: TXT, XLS

Series

Accession:: GSE272744

ID:: 200272744

Select item 2002763763.

The pore-forming apolipoprotein APOL7C drives phagosomal rupture and antigen cross-presentation by dendritic cells

(Submitter supplied) Conventional dendritic cells (cDCs) generate protective cytotoxic T lymphocyte (CTL) responses against pathogens and tumours. This is achieved through a process known as cross-presentation (XP) and, despite its obvious biological importance, the mechanism(s) driving XP remain unclear. Here, we show that a cDC-specific pore-forming protein called apolipoprotein L 7C (APOL7C) is upregulated in response to innate immune stimuli and is recruited to phagosomes. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL19057
6 Samples

Download data: TXT

Series

Accession:: GSE276376

ID:: 200276376

Select item 2002731254.

RNA-seq in SREBF1-deficient human iPSCs, hiPSC-NSCs and differentiated cells.

(Submitter supplied) Omics analyses and qRT-PCR time-course during the transition from hiPSC to hiPSC-NSC highlighted the up-regulation of SREBF1, a gene involved in cholesterol biosynthesis and lipid homeostasis, suggesting its potential role in NSC commitment/maintenance. To test this hypothesis, we generated SREBF1-deficient hiPSC lines by co-delivering ribonucleoprotein Cas9 with a pool of sgRNA targeting exon 5 of the SREBF1 gene. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL16791
24 Samples

Download data: TXT

Series

Accession:: GSE273125

ID:: 200273125

Select item 2002394465.

RNA-seq and ChIP-seq profiling of human iPSCs, derived NSCs and human fetal NSCs

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL16791
49 Samples

Download data: BW, TXT

Series

Accession:: GSE239446

ID:: 200239446

Select item 2002767536.

An accelerated Parkinson’s disease monkey model using AAV-α-synuclein plus Poly(ADP-ribose)

(Submitter supplied) The etiology of Parkinson’s disease (PD) remains elusive, and the limited availability of suitable animal models hampers research on pathogenesis and drug development. We report the development of a cynomolgus monkey model of PD that combines AAV-mediated overexpression of α-synuclein into the substantia nigra with injection of Poly(ADP-ribose) (PAR) into the striatum. Our results show that pathological processes were accelerated, including dopaminergic neuron degeneration, Lewy Bodies aggregation, and hallmarks of inflammation in microglia and astrocytes. more...

Organism:: Macaca fascicularis

Type:: Expression profiling by high throughput sequencing

Platform:: GPL28212
32 Samples

Download data: MTX, TSV

Series

Accession:: GSE276753

ID:: 200276753

Select item 2002773287.

Silmitasertib in combination with cabozantinib impairs liver cancer cell cycle progression, induces apoptosis and delays tumor growth in a preclinical model

(Submitter supplied) The rising incidence of hepatocellular carcinoma (HCC) is a global problem. Several approved treatments, including immune therapy and multi-tyrosine kinase inhibitors, are used for treatment, although the results are not optimum. There is an unmet need to develop highly effective chemotherapies for HCC. Targeting multiple pathways to attack cancer cells is beneficial. Cabozantinib is an orally available bioactive multikinase inhibitor and has a modest effect on HCC treatment. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
6 Samples

Download data: TSV

Series

Accession:: GSE277328

ID:: 200277328

Select item 2002687428.

Respiratory Syncytial Virus (RSV) optimizes the translational landscape during infection

(Submitter supplied) Viral infection often triggers eukaryotic initiator factor 2α (eIF2α) phosphorylation, leading to global 5’-cap-dependent translation inhibition. RSV encodes messenger RNAs (mRNAs) mimicking 5’-cap structures of host mRNAs and thus inhibition of cap-dependent translation initiation would likely also reduce viral translation. We confirmed that RSV limits widespread translation initiation inhibition and unexpectedly found that the fraction of ribosomes within polysomes increases during infection, indicating higher ribosome loading on mRNAs during infection. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24676
12 Samples

Download data: TXT

Series

Accession:: GSE268742

ID:: 200268742

PubMed Full text in PMC Similar studies

Select item 2002756729.

RNA binding protein Pcbp1 maintains mitochondria integrity to promote antibody production and germinal center response[scRNA-seq]

(Submitter supplied) B cells are crucial for adaptive immunity, orchestrating humoral responses by producing antibodies essential for pathogen clearance. Here, we show that Poly(rC) binding protein 1 (Pcbp1), a multifunctional RNA-binding protein, is a key regulator of antibody production in B cells. Pcbp1 deficiency in B cells resulted in significant reductions in IgM expression at steady state and compromised differentiation of germinal center B cells and production of high-affinity antibodies upon immunization. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24247
2 Samples

Download data: MTX, TSV

Series

Accession:: GSE275672

ID:: 200275672

Select item 20027566910.

RNA binding protein Pcbp1 maintains mitochondria integrity to promote antibody production and germinal center response[RNA-seq]

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13112
10 Samples

Download data: TXT

Series

Accession:: GSE275669

ID:: 200275669

Select item 20026739811.

Translation efficiency in the pancreatic tumor in response to ketogenic diet and targeting eIF4E phosphorylation

(Submitter supplied) To investigate the translatome in the pancreatic tumor inresponse to ketogenidc diet and the combination of ketogenic diet with an inhibitor targeting eIF4E phosphorylation. We generated pancreatic tumor xenograftmice model, treated mice with regular chow, ketogenic diet or ketogenic diet with eFT508, an inhibitor targeting eIF4E phosphorylation. Then we performed Poly-RNAseq on the tumor isolated from mice upon different treatments.

Organism:: Homo sapiens

Type:: Other

Platform:: GPL24676
12 Samples

Download data: CSV

Series

Accession:: GSE267398

ID:: 200267398

PubMed Similar studies

Select item 20026361912.

Hydrogel biomaterials that stiffen and soften on demand reveal that skeletal muscle stem cells harbor a mechanical memory

(Submitter supplied) Muscle stem cells (MuSCs) are specialized cells that reside in adult skeletal muscle poised to repair muscle tissue. The ability of MuSCs to regenerate damaged tissues declines markedly with aging and in diseases such as Duchenne muscular dystrophy, but the underlying causes of MuSC dysfunction remain poorly understood. Both aging and disease result in dramatic increases in the stiffness of the muscle tissue microenvironment from fibrosis. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24247
10 Samples

Download data: H5AD

Series

Accession:: GSE263619

ID:: 200263619

PubMed Similar studies

Select item 20026165113.

Unique structural features of the human NuA4/TIP60 acetyltransferase and chromatin remodeling complex [RNA-seq]

(Submitter supplied) The human NuA4/TIP60 co-activator complex, a fusion of the yeast SWR1 and NuA4 complexes, both incorporates the histone variant H2A.Z into nucleosomes and acetylates histones H4/H2A/H2A.Z to play crucial roles regulating gene expression and maintaining genome stability. Our cryo-EM studies show that within the NuA4/TIP60 complex, the EP400 subunit serves as an architectural scaffold holding the different functional modules in specific positions and giving rise to a novel arrangement of the ARP module. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL18573
6 Samples

Download data: BW, TXT

Series

Accession:: GSE261651

ID:: 200261651

Select item 20026380814.

RNA-seq of O4+ oligodendrocyte progenitors isolated from P5 and P60 mice

(Submitter supplied) Adult oligodendrocyte progenitors (aOPCs) share with their neonatal counterpart (nOPC) the ability to give rise to myelinating oligodendrocytes, but they also display unique functional features. This study addresses the molecular mechanisms underlying the intrinsic differences between these two populations. Using RNA-sequencing and unbiased histone proteomics analysis performed on PDGFRa+ OPCs sorted from a reporter mouse, we define the unique transcriptome and histone marks of aOPCs. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL34760
32 Samples

Download data: TXT

Series

Accession:: GSE263808

ID:: 200263808

PubMed Similar studies

Select item 20023956015.

EZH2 directly methylates PARP1 and regulates its activity in cancer

(Submitter supplied) DNA repair dysregulation is a key driver of cancer development. Understanding the molecular mechanisms underlying DNA repair pathways and their dysregulation in cancer cells is crucial for cancer development and therapies. Here, we report that enhancer of zeste homolog 2 (EZH2) directly methylates poly (ADP-ribose) polymerase-1 (PARP-1), an essential enzyme involved in DNA repair, at lysine 607 and regulates its activity. more...

Organism:: Homo sapiens

Type:: Expression profiling by high throughput sequencing

Platform:: GPL28038
6 Samples

Download data: XLSX

Series

Accession:: GSE239560

ID:: 200239560

Analyze with GEO2R

Select item 20026785716.

A nuclear RNA degradation code for eukaryotic transcriptome surveillance

(Submitter supplied) The RNA exosome is an RNA degradation machine that is critical for eukaryotic transcriptome surveillance and mutations in exosome components cause numerous human diseases. The exosome is directed to specific RNAs by adaptor protein complexes. However, it remains unclear how these adaptors specifically recognize their target RNAs. The PAXT connection is an adaptor that recruits the exosome to polyadenylated RNAs in the nucleus, especially transcripts polyadenylated at intronic poly(A) sites. more...

Organism:: Homo sapiens

Type:: Other

Platform:: GPL24676
16 Samples

Download data: BW

Series

Accession:: GSE267857

ID:: 200267857

Select item 20023468817.

SMYD5 is a regulator of the mild hypothermia response [RNA-Seq]

(Submitter supplied) Organisms have homeostatic mechanisms to respond to cold temperature to ensure survival including the activation of the mammalian neuroprotective mild hypothermia response (MHR) at 32°C. Utilizing a forward CRISPR-Cas9 mutagenesis screen, we identify the histone lysine methyltransferase SMYD5 as an epigenetic gatekeeper of the MHR. SMYD5 represses the key MHR gene SP1 at euthermia but not at 32°C. This repression is mirrored by temperature-dependent levels of H3K36me3 at the SP1-locus and globally indicating that the mammalian MHR is regulated at the level of histone modifications. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24247
31 Samples

Download data: CSV, H5

Series

Accession:: GSE234688

ID:: 200234688

PubMed Full text in PMC Similar studies

Select item 20024202718.

hnRNP R promotes O-GlcNAcylation of eIF4G and facilitates axonal protein synthesis

(Submitter supplied) Motoneurons critically depend on precise spatial and temporal control of translation for axon growth and the establishment and maintenance of neuromuscular connections. While defects in local translation have been implicated in the pathogenesis of motoneuron disorders, little is known about the mechanisms regulating axonal protein synthesis. Here, we report that motoneurons derived from Hnrnpr knockout mice show reduced axon growth accompanied by lowered synthesis of cytoskeletal and synaptic components in axons. more...

Organism:: Mus musculus

Type:: Expression profiling by high throughput sequencing

Platform:: GPL19057
16 Samples

Download data: CSV

Series

Accession:: GSE242027

ID:: 200242027

PubMed Full text in PMC Similar studies

Select item 20024355719.

PRDM6 promotes medulloblastoma by repressing chromatin accessibility and altering gene expression [CUT&Run]

(Submitter supplied) SNCAIP duplication may promote Group 4 medulloblastoma via induction of PRDM6, a poorly characterized member of the PRDF1 and RIZ1 homology domain-containing (PRDM) family of transcription factors. Here, we investigated the function of PRDM6 in human hindbrain neuroepithelial stem cells and tested PRDM6 as a driver of Group 4 medulloblastoma. We report that human PRDM6 localizes predominantly to the nucleus, where it causes widespread repression of chromatin accessibility and complex alterations of gene expression patterns. more...