Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

M5C MeRIP sequencing in PANC-1 cells to map the m5C methylome of PANC-1 cells treated with CAF-derived Evs

ABSTRACT: m5C MeRIP sequencing in PANC-1 cells to map the m5C methylome of PANC-1 cells treated with CAF-derived Evs

PROVIDER: PRJNA1100438 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR28682527_1.fastq.gz	Fastqsanger.gz
	SRR28682527_2.fastq.gz	Fastqsanger.gz
	SRR28682528_1.fastq.gz	Fastqsanger.gz
	SRR28682528_2.fastq.gz	Fastqsanger.gz
	SRR28682529_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 8

Similar Datasets

m5C MeRIP sequencing in PANC-1 cells to map the m5C methylome of PANC-1 cells treated with CAF-derived Evs

Project description:EV-packaged PIAT mediates EGR1, NTRK1 and SMAD7 mRNA stability in a YBX1-dependent manner. To explore whether YBX1 enhances EGR1, NTRK1 and SMAD7 mRNA stability in an m5C-dependent manner, we conducted m5C-seq in PANC-1 cells to map the m5C methylome of PANC-1 cells treated with CAF-derived EVs.

2024-04-20 | GSE263948 | GEO

mRNA profile of PANC-1 treated with CAF-derived Evs

Project description:Perineural invasion (PNI) is a unique biological feature of pancreatic cancer and is a key cause of pancreatic cancer metastasis, recurrence and poor postoperative survival, but its mechanism is largely unclarified. Clinical sample analysis and endoscopic ultrasonographic elasticity scoring indicated that cancer-associated fibroblasts (CAFs) are closely related to the occurrence of PNI. Furthermore, CAF-derived extracellular vesicles played an extremely important role in PNI in a dorsal root ganglion (DRG) coculture model and sciatic nerve model. Next, we demonstrated that CAFs promoted PNI via extracellular vesicle transmission of PNI-associated transcript (PIAT). To determine how CAF EVs exert its function, we performed mRNA sequencing on PANC-1 treated with CAFs-derived EVs

2024-04-20 | GSE263949 | GEO

mRNA profile of PANC-1 treated with CAF-derived Evs

Project description:mRNA profile of PANC-1 treated with CAF-derived Evs

| PRJNA1100447 | ENA

RNA m5C Methylation in breast cancer using MeRIP-Seq

Project description:RNA m5C methylation profile of MCF10A and MDA486 by using MeRIP-Seq protocol Immunoprecipitation of Methylated mRNA at Cytosine (m5C) residues: Affinity purified of anti-methyl cytosine (m5C) polyclonal antibody 7ug (Zymo Research, Catalog#A3001-50) was conjugated with protein-A magnetic beads for 2 h at 4°C in end to end rotator. After that, conjugated beads were extensively washed with RNA immunoprecipitation (RIP) wash buffer to remove unbound antibody. Fragmented 25 ug polyA RNA (mRNA) was incubated with m5C conjugated beads for overnight at 4°C in in the rotating platform in RIP buffer. RIP was done using Megna RNA Immunoprecipitation kit (Millipore, Catalog#17-700). m5C mRNA-immune bead complex was treated with proteinase K buffer to release m5C mRNA from the conjugated antibody. To isolate m5C, mRNA was treated with phenol:chloroform:isoamyl and mixed with 400 ul of chloroform, which was centrifuged at 14000 rpm for 10 minutes to separate aqueous phase. The aqueous phase was ethanol precipitated at -80°C for overnight, to get m5C mRNA. This precipitated m5C mRNA pellet was washed twice with 70% ethanol and air dried. Finally, m5C mRNA pellet was dissolved in nuclease free Water. The m5C mRNA integrity and conentration was quantified by bioanalyzer (Agilent) and Qubit 2.0 flurometer (Invitrogen). The fragmented mRNA was used by following TruSeq RNA Sample Preparation Guide to develop RNA-Seq library for sequencing.

2014-02-20 | E-GEOD-53370 | biostudies-arrayexpress

lncRNA profile of PANC-1 treated with CAFs derived EVs

Project description:Perineural invasion (PNI) is a unique biological feature of pancreatic cancer and is a key cause of pancreatic cancer metastasis, recurrence and poor postoperative survival, but its mechanism is largely unclarified. Clinical sample analysis and endoscopic ultrasonographic elasticity scoring indicated that cancer-associated fibroblasts (CAFs) are closely related to the occurrence of PNI. Furthermore, CAF-derived extracellular vesicles played an extremely important role in PNI in a dorsal root ganglion (DRG) coculture model and sciatic nerve model. To explore the lncRNA packaged in CAFs EVs transmitted to PANC-1, we conducted the lncRNA profile of PAN-1 treated with CAFs derived EVs.

2024-05-07 | GSE266656 | GEO

RNA m5C Methylation in breast cancer using MeRIP-Seq

Project description:RNA m5C methylation profile of MCF10A and MDA486 by using MeRIP-Seq protocol

2014-02-20 | GSE53370 | GEO

RIP sequencing in PANC-1 cells to map the YBX1-binding mRNA of PANC-1 cells treated with CAF-derived Evs

Project description:RIP sequencing in PANC-1 cells to map the YBX1-binding mRNA of PANC-1 cells treated with CAF-derived Evs

| PRJNA1101495 | ENA