FunGen-xQTL protocol data. A toy data-set consisting of 49 de-identified samples from ROSMAP project, used to illustrates the computational protocols we developed for the detection and analysis of molecular QTLs (xQTLs).
MAGENTA African American blood gene expression. Multi-Ancestry Genomics, Epigenomics, and Transcriptomics of Alzheimer’s (MAGENTA) Project: Participants include 465 individuals (AA – 113 with AD, 118 cognitively intact controls; NHW – 116 with AD, 118 controls) ascertained by the John P.
Lead analysts: Makaela Mews (analyst); Dr.
MAGENTA African American Blood Gene Expression QTL. Multi-Ancestry Genomics, Epigenomics, and Transcriptomics of Alzheimer’s (MAGENTA) Project: Participants include 465 individuals (AA – 113 with AD, 118 cognitively intact controls; NHW – 116 with AD, 118 controls) ascertained by the John P.
MAGENTA Non-Hispanic White blood gene expression. Multi-Ancestry Genomics, Epigenomics, and Transcriptomics of Alzheimer’s (MAGENTA) Project: Participants include 465 individuals (AA – 113 with AD, 118 cognitively intact controls; NHW – 116 with AD, 118 controls) ascertained by the John P.
Lead analysts: Makaela Mews (analyst); Dr.
MAGENTA Non-Hispanic White Blood Gene Expression QTL. Multi-Ancestry Genomics, Epigenomics, and Transcriptomics of Alzheimer’s (MAGENTA) Project: Participants include 465 individuals (AA – 113 with AD, 118 cognitively intact controls; NHW – 116 with AD, 118 controls) ascertained by the John P.
Lead analysts: Multi-Ancestry Genomics, Epigenomics, and Transcriptomics of Alzheimer’s (MAGENTA) Project: Participants include 465 individuals (AA – 113 with AD, 118 cognitively intact controls; NHW – 116 with AD, 118 controls) ascertained by the John P.
MiGA genotype data. Microglia Genomic Atlas from the Netherlands Brain Bank (NBB) and the Neuropathology Brain Bank and Research CoRE at Mount Sinai Hospital.
Lead analysts: Travyse Edwards.
MiGA multi-brain region gene expression. A genetic and transcriptomic resource comprised of 255 primary human microglia samples isolated ex vivo from four different brain regions of 100 human subjects with neurodegenerative, neurological, or neuropsychiatric disorders, as well as unaffected controls.
Lead analysts: Travyse Edwards.
MiGA multi-brain region gene expression QTL. A genetic and transcriptomic resource comprised of 255 primary human microglia samples isolated ex vivo from four different brain regions of 100 human subjects with neurodegenerative, neurological, or neuropsychiatric disorders, as well as unaffected controls.
Lead analysts: Travyse Edwards.
MiGA study info. Microglia Genomic Atlas from the Netherlands Brain Bank (NBB) and the Neuropathology Brain Bank and Research CoRE at Mount Sinai Hospital.
ROSMAP AC gene expression. Religious Orders Study (ROS) or the Rush Memory and Aging Project (MAP) AC gene expression.
Lead analysts: Frank Grenn.
ROSMAP AC gene expression QTL. Religious Orders Study (ROS) or the Rush Memory and Aging Project (MAP) AC gene expression.
Lead analysts: Frank Grenn.
ROSMAP Covariates data. Religious Orders Study (ROS) or the Rush Memory and Aging Project (MAP) covariates data.
Lead analysts: There are couple of versions of covariates files been used for QTL calling, which may lead to inconsistency of data production and downstream integration analysis.
ROSMAP DLPFC alternative splicing. Religious Orders Study (ROS) or the Rush Memory and Aging Project (MAP) DLPFC alternative splicing.
ROSMAP RNA-seq monocyte QTL. Religious Orders Study (ROS) or the Rush Memory and Aging Project (MAP) monocyte data-set.
Lead analysts: Travyse Edwards.
ROSMAP snRNA-seq pseudo-bulk gene expression. Religious Orders Study (ROS) or the Rush Memory and Aging Project (MAP) snRNA-seq from different cells in Dorsolateral Prefrontal Cortex (DLPFC).
Lead analysts: Hao Sun and Masashi Fujita.
ROSMAP snRNA-seq pseudo-bulk gene expression QTL. Religious Orders Study (ROS) or the Rush Memory and Aging Project (MAP) snRNA-seq from different cells in Dorsolateral Prefrontal Cortex (DLPFC).
Lead analysts: Hao Sun (eQTL), Masashi Fujita (eQTL), Haochen Sun (fine-mapping), Jiajun Tao (replication).
ROSMAP study info. Religious Orders Study (ROS) or the Rush Memory and Aging Project (MAP) study: ROS is a longitudinal clinical-pathologic cohort study of aging and Alzheimer’s disease (AD) run from Rush University that enrolled individuals from religious communities for longitudinal clinical analysis and brain donation.
STARNET. STARNET is an RNA expression study of various disease-relevant tissues obtained from living patients with cardiovascular disease (CVD).
Lead analysts: Travyse Edwards.
STARNET genotype data. STARNET is an RNA expression study of various disease-relevant tissues obtained from living patients with cardiovascular disease (CVD).
Lead analysts: Travyse Edwards.
STARNET macrophage gene expression QTL. STARNET is an RNA expression study of various disease-relevant tissues obtained from living patients with cardiovascular disease (CVD).
The Mount Sinai Brain Bank (MSBB) study info. This cohort study generated large-scale matched multi-Omics data in AD and control brains for exploring novel molecular underpinnings of AD.