biostudies-arrayexpressMetabolomicsUnknownTranscriptomicsGenomicsProteomicsData Submission IFOM ETSNextSeq 550RNA-seq of total RNAMus musculusMus musculushttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-14421Transcriptomic profiling of triple-negative breast cancers in a syngeneic mouse model (4T1 bearing BALB/c mice) undergoing cycles of fasting (48-hours of water-only fasting, every 7 days) vs. ad libitum diet (control group).biostudies-arrayexpressLibrary Construction - For each sample, 500 ng of total RNA were used to generate a library of fragments using Illumina Stranded mRNA prep ligation kit. Oligo(dT) magnetic beads purified and captured mRNA molecules containing poly(A) tails. Then, purified mRNA was fragmented and copied into first strand complimentary DNA (cDNA) using reverse transcriptase and random primers. In a second strand cDNA synthesis step, dUTP replaced dTTP to achieve strand specificity. The final steps added adenine and thymine bases to fragment ends and ligated adapters. The resulting products were purified and selectively amplified with 12 cycles of PCR to generate an indexed library of fragments.Sequencing - Library fragments were sequenced using 2x75nt read mode, thus sequencing 75 nucleotides from both ends of each fragment; on average, approximately 50 million paired-end fragments were sequenced for each sample. Sequencing results were generated in fastq.gz format.Nucleic Acid Extraction - RNA was extracted from tumor masses collected after the second cycle of fasting, or at the corresponding timepoint in the control group. RNA was extracted from snap-frozen tumor masses using the RNeasy Mini Kit (QIAGEN).Sample Collection - When tumors became palpable, mice were randomly assigned to ad libitum diet (comtrol arm) or cyclic fasting (experimental arm). At the end of the experiments, mice were euthanized by using CO2, and tumor masses collected.OrganizationMINSEQE ScoreAssays and DataMAGE-TAB FilesClaudio VernieriGiulia SalvadoriData Submission IFOM ETSMattia ReditifalseTranscriptomic profiling of triple-negative breast cancer in a syngeneic mouse model undergoing fastingTranscriptomic profiling of triple-negative breast cancers in a syngeneic mouse model (4T1 bearing BALB/c mice) undergoing cycles of fasting (48-hours of water-only fasting, every 7 days) vs. ad libitum diet (control group).2025-08-07T00:00:00Z2025-08-08T00:03:00.664Z2024-09-05T13:41:55.953ZE-MTAB-14421ERP163871EFO_0002944EFO_0004170EFO_0009653EFO_0005518EFO_0004184