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Sample GSM3059550 Query DataSets for GSM3059550
Status Public on Apr 26, 2019
Title A549 m7G-RIP Input Rep 2
Sample type SRA
Source name A549 human lung adenocarcinoma cell line
Organism Homo sapiens
Characteristics cell line: A549
sample type: INPUT RNA
Treatment protocol Heat-denatured RNA was immunoprecipitated with a specific antibody against m7G (MBL RN017M, Lot.001).
Growth protocol A549 cells were cultured in DMEM (Invitrogen), supplemented with 10% FBS and 1% penicillin/streptomycin/glutamine.
Extracted molecule total RNA
Extraction protocol Cells were lysed in Qiazol (Qiagen) and total RNA was purified using the miRNAeasy mini kit (Qiagen)
Libraries were prepared using the NEBNext SmallRNA kit (NEB) according to the manufacturer’s recommendations
Library strategy RIP-Seq
Library source transcriptomic
Library selection other
Instrument model Illumina HiSeq 4000
Description profiling strategy:
m7G-RNA Immunoprecipitation
Data processing Raw sequencing .bcl files were demultiplexed in FASTQ format using Illumina Basespace
Library adaptors were trimmed with Trimmomatic
Reads were mapped to the human genome with Bowtie2
Reads were summarized using featureCounts according to miRbase21 annotation
Genome_build: NCBI GRCh38/hg38
Supplementary_files_format_and_content: Raw miRNA counts in tab-separated value file
Submission date Mar 21, 2018
Last update date Apr 26, 2019
Contact name Luca Pandolfini
Organization name Istituto Italiano di Tecnologia - I
Department Center for Human Technologies
Street address Via Enrico Melen 83, Building B
City Genova
State/province Genova
ZIP/Postal code 16152
Country Italy
Platform ID GPL20301
Series (2)
GSE112181 m7G methylation by METTL1 regulates let-7 microRNAs [BoRed-Seq & m7G-RIP-Seq A549]
GSE112182 m7G methylation by METTL1 regulates let-7 microRNAs
BioSample SAMN08769862
SRA SRX3829853

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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