{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Dulce Papy-Garcia"],"organism":["Mus musculus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-16551"],"description":["The objective of this study was to compare the hippocampal transcriptomic landscape of the rTg4510 mouse model of tauopathy (Tg) at two ages (2 and 4 months) with that of wild-type (WT) littermates at the same ages, and to assess age-related changes (2 vs 4 months) within each genotype. The rTg4510 line overexpresses a repressible form of human tau carrying the P301L mutation. Tau expression is controlled by a tetracycline-responsive element (tetO) and driven by a forebrain-specific transactivator under the CaMKIIα promoter. Mice were maintained without doxycycline. In the absence of doxycycline, tau expression is induced primarily in the hippocampus and cortex, leading to progressive tau pathology (including tau hyperphosphorylation and neurofibrillary tangle formation) and associated neurodegenerative phenotypes. Transcriptomic changes in the hippocampus during early disease evolution (2 vs 4 months) are still incompletely characterized. This dataset provides bulk hippocampal RNA-seq data to support the analysis of age- and genotype-associated molecular changes in this model."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Treatment - No treatment was applied; animals were maintained without pharmacological intervention.","Sample Collection - Hippocampi were dissected from 2- and 4-month-old wild-type and rTg4510 mice and snap-frozen (or stored at −80°C) until RNA extraction. Both male and female mice were allocated randomly between experimental groups.","Library Construction - Total RNA and library integrity were verified on LabChip GX Touch 24. Between 197.97 and 276.9 ng of total RNA were used as input for the SMARTer Stranded Total RNA Sample Prep Kit – HI Mammalian (Clontech/Takara), following the manufacturer’s instructions.","Nucleic Acid Extraction - Total RNA was extracted using Trizol/Qiazol followed by purification with the RNeasy Mini Kit (Qiagen). Hippocampal tissue was lysed and homogenized in Trizol using a rotor-station homogenizer. Chloroform was added, samples were centrifuged (12,000 g, 10 min), and the aqueous phase was transferred to a new tube. Ethanol was added and samples were loaded onto RNeasy spin columns and processed according to the manufacturer’s instructions. RNA was eluted in RNase-free water and either stored at −80°C or quantified immediately.","Sequencing - Libraries were sequenced on an Illumina NovaSeq 6000 using an S1 cartridge (200 cycles) in paired-end mode (~1.6 billion reads in total for the run).","Growth Protocol - Mice were maintained under standard laboratory housing conditions with ad libitum access to food and water."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","MAGE-TAB Files"],"data_protocol":["Sequence Alignment - Raw reads were quality-checked with FastQC and trimmed with Trimmomatic (LEADING:3 TRAILING:3 SLIDINGWINDOW:4:15 HEADCROP:4 MINLEN:4). Transcript quantification was performed with Salmon against the mouse reference (GRCm39) using an alignment-free quasi-mapping approach.","Data Transformation - Raw reads were quality-checked with FastQC and trimmed with Trimmomatic (LEADING:3 TRAILING:3 SLIDINGWINDOW:4:15 HEADCROP:4 MINLEN:4). Transcript abundance was quantified with Salmon using the mouse reference (GRCm39). Differential expression analysis was performed with DESeq2."],"omics_type":["Unknown","Transcriptomics"],"instrument_platform":["Illumina NovaSeq 6000"],"study_type":["RNA-seq of coding RNA"],"species":["Mus musculus"],"pubmed_authors":["Dulce Papy-Garcia"],"additional_accession":[]},"is_claimable":false,"name":"Transcriptomic landscape of the hippocampus in 2- and 4-month-old rTg4510 mice and wild-type littermates","description":"The objective of this study was to compare the hippocampal transcriptomic landscape of the rTg4510 mouse model of tauopathy (Tg) at two ages (2 and 4 months) with that of wild-type (WT) littermates at the same ages, and to assess age-related changes (2 vs 4 months) within each genotype. The rTg4510 line overexpresses a repressible form of human tau carrying the P301L mutation. Tau expression is controlled by a tetracycline-responsive element (tetO) and driven by a forebrain-specific transactivator under the CaMKIIα promoter. Mice were maintained without doxycycline. In the absence of doxycycline, tau expression is induced primarily in the hippocampus and cortex, leading to progressive tau pathology (including tau hyperphosphorylation and neurofibrillary tangle formation) and associated neurodegenerative phenotypes. Transcriptomic changes in the hippocampus during early disease evolution (2 vs 4 months) are still incompletely characterized. This dataset provides bulk hippocampal RNA-seq data to support the analysis of age- and genotype-associated molecular changes in this model.","dates":{"release":"2026-01-14T00:00:00Z","modification":"2026-01-20T16:37:46.821Z","creation":"2026-01-20T16:37:13.134Z"},"accession":"E-MTAB-16551","cross_references":{"ENA":["ERP187944"],"EFO":["EFO_0002944","EFO_0004170","EFO_0003789","EFO_0004917","EFO_0005518","EFO_0003816","EFO_0003738","EFO_0004184","EFO_0003969"]}}