Mengjie Chen

Check out our scPrediXcan paper cell.com/cell-genomics/… Led by talented @Charles_Zhou12, supervised by @MengjieChen6 and me, with thanks to many contributors scPrediXcan integrates deep learning and single cell expression data into a powerful cell type specific TWAS framework.

Many settle for pseudo-bulk DE in single-cell genomics due to analysis challenges. If you're aiming for true single-cell resolution, check out our latest report on common pitfalls and a framework to overcome them. link.springer.com/article/10.118…

My little dive into scATACseq is online. Using current peaks to evaluate regulatory elements is like using the wrong sieve for the sand - you might be missing what is truly important.

Dcyfyhsddf open.spotify.com/track/1iWm6a8g…

My recent favorite work on generalizing zero-proportion test to k-proportion test for single cell data. The math is simple and charming, a perfect complement to your afternoon tea. biorxiv.org/content/10.110…

Share our thoughts and case studies on DE analysis using single-cell RNA-seq. biorxiv.org/cgi/content/sh……

The curses of performing differential expression analysis using single-cell data biorxiv.org/cgi/content/sh… #biorxiv_bioinfo

Today we report in @NatureBiotech "An adenine base editor variant expands context compatibility". Existing ABEs function most effectively on TA. Here we develop TadA8r, a new TadA variant that extends potent deoxyadenosine deamination to GA and AA. 1/n nature.com/articles/s4158…

Exciting news! Our latest research, published in @NatureGenet, reveals the impact of a genetic variant associated with a higher WHR in women. The variant contributes to excess fat accumulation in female mice, but not males! #obesity #Genetics nature.com/articles/s4158…

Our first HCA paper is out!

Very excited to share our work with @WeixinT on a breakthrough high throughput m6A quantification method!

Proximity sequencing for simultaneous measurement of proteins, protein complexes and mRNA in single cells, finally published in @naturemethods ! nature.com/articles/s4159…

Extreme gratitude to my colleagues who contributed to this work @lfspurr @rweichselbaum @eevokes @MengjieChen6 @JPatelMD @max_diehn @Docace911 and funding from @Ludwig_Cancer @LUNGevity @UCCancerCenter @UChicagoMed @UChicagoRadonc

Are you interested in using deep learning for genomic predictions? Join my lab! please RT

Thrilled to share I’m starting as an Assistant Professor of Biomedical Data Science at @UChicago in November. Hiring postdocs, research associates, post bacs and any other category of talented researcher! (Also we got a super cute puppy)

Job alert🚨: If you are interested in this line of research, or the study of pathogen-driven selection more broadly, please reach out to me. We have several postdoc opportunities in my lab. Please RT. luis-barreirolab.org

Most recent work from the lab just out @Nature. By combining ancient DNA work, population genomics, and in vitro infections we show that the Black Death shaped the evolution of immune genes. Kuddos to co-first authors @TaurVil and Jennifer Klunk. nature.com/articles/s4158…

Fellowship opportunity to accelerate the adoption of artificial intelligence (AI) in the natural sciences. Reach out to me if you are interested in applying AI to understand complex disease biology aiscience.uchicago.edu

Bioinformatician / data scientist positions available in my lab at @UChicago! Interested in expanding your computational genomics skills & work on microbiome and human genomic data? Apply here: uchicago.wd5.myworkdayjobs.com/External/job/C… More about the lab: blekhmanlab.org

Cong!