Lab News and Pictures

Published

January 1, 2017

Here are some recent news.

Dinner at the ACNP 2023

Having dinner with colleagues at the American College of Neuropsychopharmacology ACNP 2023 meeting. Thank you Francesca for lending me your coat. It was chilly.

ASHG 2022 LA Ravi & Alex

Bumped into Ravi, Alex, and colleagues

ASHG 2022 LA Heather & Paul

Bumped into Heather and Paul at ASH

Molecular Biosciences Retreat - 2022

Retreat at the Q Center. Students had a great time. They even managed to get Haky to dance!

PCB retreat

Lunch at the Quad

Lunch at the Quad with Beau, Festus, Manuela, and Margaret

Picnic at the Millenium Park

Alex Pearson’s Visit

Alex Pearson shared with us his research on deep learning applied to medical outcomes

IGES journal club reads the original PrediXcan paper

PredictDB: Transcriptome Prediction Model Repository

Here you can find transcriptome prediction models for the PrediXcan family of methods: S-PrediXcan, MultiXcan and S-MultiXcan. .db files are prediction models, usable by all…

GTEx V8 Model Release

We have recently published a new set of prediction models trained on GTEx v8 data (as part of efforts detailed in this preprint. We have overhauled the model construction…

Qqplot Calibration Rare Variants

[In this report] (https://s3.amazonaws.com/imlab-open/Webdata/Files/2018/qqplot-calibration.pdf) I calculate the lower bounds of p-values when using very rare variants, for…

How to query our gene2pheno database directly

We have opened direct access to the gene2pheno database, where we are hosting the PrediXcan results of close to 3000 phenotypes (from public GWAS meta analysis results and…

GTEx V7 Prediction Model Release Announcement

We are releasing prediction models trained on GTEx Version 7 data. Download from here. We have updated our processing pipeline, and restricted to individuals of European…

Bidding Farewell to Scott

After two years in the Lab, Scott has decided to join the well paid workforce. Scott is a wonderful colleague to all of us and has made important contributions to our team.…

Limitations of PrediXcan association results

Keep in mind that significant associations shown here do not imply causality. That said, given that PrediXcan is seeking to test the role of gene expression variation on…

Vulnerabilities of the ‘Vulnerabilities of transcriptome wide association studies’ argument

PrediXcan and other transcriptome wide association study (TWAS) methods discover and prioritize genes based on a functional mechanism –regulation of gene expression. We…

Transcriptome prediction models are robust across populations

Most GWAS and eQTL studies have been performed in European samples. So how well do models trained in Europeans translate to other populations? Segal et al have shown that…

We are releasing all PrediXcan associations based on Neale Lab’s UKB rapid GWAS results

Update (11/1/2017)

ImLab was awarded NIH Cloud Credit

We are delighted to be awarded NIH Cloud Credit that will help us fund our cloud-based web applications and databases and broadly share our tools and resources.

U4C Challenge Winners

Two out of 4 winners used PrediXcan :thumbsup::thumbsup:

IGES 2017 Cambridge UK

Milton at Queens College Cambridge

S-PrediXcan (MetaXcan) in drug repositioning

So et al use S-PrediXcan to find psychiatric drug repositioning candidates.

Lab Photo Summer 2017

Dinner with Nancy at the GTEx meeting

After the last formal GTEx analysis working group’s internal meeting at Rockville, MD, the Im Lab went for dinner with Nancy Cox, Barbara Stranger, and Eric Gamazon. From…

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