The June 2020 Data Release includes several new studies from the MODEL-AD program, plus a variety of data from multiple human cohorts.

Human

  • MSBB study: This study provides WES, WGS, RNAseq, label free, and Tandem Mass Tag proteomics on a cohort from the Mount Sinai Brain Bank

    This release adds:

    • Normalized methylation data from parahippocampal gyrus tissue for 201 individuals.
    • Raw ATACseq data from Superior Temporal Gyrus and Entorhinal cortex for 209 individuals.
    • An update to the proteomics metadata file. An individual was incorrectly labeled as male and has been updated to female.

  • ROSMAP study
    This study contains data generated from subjects participating in the Religious Orders Study (ROS) and Memory and Aging Project (MAP). These are longitudinal clinical-pathologic cohort studies of aging and AD run from Rush University. Previously released from these studies is GWAS, WGS, RNAseq on bulk and single nuclei from the dorsolateral prefrontal cortex, microglia RNAseq, array mRNA and miRNA expression, epigenetics, and metabolomics.

    This release adds:

    • Bulk RNAseq for ~1k dorsolateral prefrontal cortex and posterior cingulate cortex samples.
    • Bulk RNAseq from monocytes for 615 blood samples.
    • An update to the QC normalized TMT proteomic profiles searched against the UniProtKB human proteome database containing only Swiss-Prot canonical protein sequences downloaded Feb 11, 2019.

  • Emory_Vascular study
    This study provides clinical, MRI, and metabolomics data as part of a longitudinal study investigating the contributions of vascular dysfunction in the systemic and cerebral circulations to the pathogenesis and progression of prodromal AD. All data is from the baseline visit.

    This release adds:

    • Bulk RNAseq from blood samples drawn at baseline for 200 individuals, including raw data and counts.
    • Updated clinical and MRI data, adding 50 new individuals.

  • MCSA study
    The Mayo Clinic Study of Aging provides RNAseq data from an ante-mortem, prospective, population-based cohort of 422 participants of European descent.

Models

This release includes multiple new studies and updates as part of the MODEL-AD Program.

  • Jax.IU.Pitt_StrainValidation study

    This study provides genotype validation data for the Late Onset Alzheimer’s Disease strains generated through the MODEL-AD Program. Provided is RNAseq used for genotyping and quantification of expression levels of the targeted genes, and Western Blots used for protein expression levels.

  • Jax.IU.Pitt_PrimaryScreen study

    This study provides an initial molecular and behavioral characterization of mouse models of Late-Onset Alzheimer’s Disease as part of the MODEL-AD Program. Provided is gene expression as measured by a NanoString nCounter® Mouse AD panel used to quantify expression levels of standardized genes discovered in the AMP-AD Program, and frailty assessment used to profile a spectrum of aging related characteristics.

  • Jax.IU.Pitt_hTau_Trem2 Study

    This study provides data on strains with isoforms of the human tau protein under the control of the endogenous human MAPT promoter. Provided is RNAseq data on mice at 4, 8, and 12 months.

  • Jax.IU.Pitt_Levetiracetam_5XFAD Study

    Data for this study was previously part of the ‘Model-AD_5XFAD Study’. The study examines the effects of levetiracetam dosing in 5XFAD mice and includes autoradiography, positron emission tomography, and pharmacokinetic data.

    This release adds:

    • An update of the individual mouse metadata
    • Metadata for the autoradiography and positron emission tomography assays.

  • The Jax.IU.Pitt_5XFAD Study
    This study provides deep phenotyping data on a transgenic mouse model overexpressing both human APP and PS1 mutations. This release provides RNAseq, behavioral assessments, autoradiography and PET imaging, blood chemistry measurements, and immunoassays on mice at 4, 6 and 12 months.

  • UCI_5XFAD Study
    Data for this study was previously part of the ‘Model-AD_5XFAD Study’. This study provides deep phenotyping data on a transgenic mouse model overexpressing both human APP and PS1 mutations. Previously released was RNAseq, electrophysiology and immunoassays on mice at 4, 8 and 12 months.

    This release adds:

    • Data from 18 month old mice
    • New behavioural assessments
    • Updates to the data files for electrophysiology and immunoassays.

    Updates:
    Previously released normalized RNAseq counts have been deprecated due to a sample matching issue.

  • Jax.IU.Pitt_APOE4.Trem2.R47H Study

    This study provides deep phenotyping data on a model with a humanized ApoE knock-in allele, and a knock-in point mutation in the mouse Trem2. Previously released was RNAseq on mice at 4, 6 and 12 months.

    This release adds:

    • Additional RNAseq
    • Behavioral assessments
    • Autoradiography and PET imaging
    • Blood chemistry measurements
    • Immunoassays

  • Jax.IU.Pitt_Rat_TgF344-AD Study

    This study provides brain AB and proinflammatory marker data in a rat APPS1 model at 3 and 6 months.