Models

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𝔾TEx V8 expression and splicing predictors […] PsychENCODE expression predictors […] BrainXcan brain features predictors […] More Read more →

Protein prediction models - ARIC

2022-11-14 Sabrina Mi
𝔸RIC protein prediction models in predictdb format can be downloaded from here https://uchicago.box.com/s/3sf4y4gv6c7zam0l5fxicpcd3zji5wzc See more details here https://lab-notes.hakyimlab.org/post/2021/09/08/generating-metaxcan-prediction-model-from-aric-pwas/ Read more →

Protein prediction for trait mapping in diverse populations

2022-02-12 Ryan Schubert, Heather Wheeler
ℙrediXcan ready databases and covariance files of the paper “Protein prediction for trait mapping in diverse populations” can be downloaded from here https://doi.org/10.5281/zenodo.4837327 Read more →

GTEx v8 models on eQTL and sQTL

2021-07-21 PredictDB Team
𝕎e have produced different families of prediction models for sQTL and eQTL, using several prediction strategies, on GTEx v8 release data. We recommend MASHR-based models below. Elastic Net-based are a safe, robust alternative with decreased power. […] Expression and splicing prediction models … Read more →

GTEx V8 Cross Tissue Imputation (UTMOST) Prediction Models

2020-09-10 PredictDB team - uploaded by Yanyu Liang
ℙrediction models trained with GTEx V8 data using the cross tissue imputation approach (see UTMOST paper). Trained by Alvaro Barbeira for the paper Fine‐mapping and QTL tissue‐sharing information improves the reliability of causal gene identification Download in Zenodo here Read more →

PsychENCODE Brain Expression Models

2020-07-19 Sabrina Mi, Michael Gandal
𝔾andal et al analyzed autism spectrum disorder, schizophrenia, and bipolar disorder across multiple levels of transcriptomic organization—gene expression, local splicing, transcript isoform expression, and coexpression networks for both protein-coding and noncoding genes to produce a quantitative, … Read more →

EpiXcan Models - Integrated Epigenetics

2019-08-23 PredictDB Team
𝔼xpression prediction models with LD reference data are available in this website. The models were trained on Common Mind Consortium, GTEx, and STARNET consortiums. The underlying algorithm is Elastic Net, informed by epigenetic data. These models were presented in “Integrative transcriptome … Read more →

CommonMind consortium - Brain Dorsolateral Prefrontal Cortex

2019-07-21 PredictDB Team
𝕊ingle-tissue expression prediction models with LD reference data are available in this GitHub repository. The underlying algorithm is Elastic Net. These models were presented in “Gene expression imputation across multiple brain regions provides insights into schizophrenia risk, Huckins et al, … Read more →

MESA models - non European

2018-07-21 PredictDB Team
𝕊ingle-tissue expression prediction models with LD reference data are available in this Zenodo repository. The underlying algorithm is Elastic Net on MESA multi-ethnic cohort. These models were presented in “Genetic architecture of gene expression traits across diverse populations”, … Read more →

GTEx v7 Expression models

2017-11-29 PredictDB Team
𝔼xpression prediction models with LD reference data ar available in this Zenodo repository. The underlying algorithm is Elastic Net. […] Additional support information and details are available in the Zenodo repository. You can find release notes in this link. Acknowledging these models: If … Read more →