Assistant professor at Dartmouth College. PhD@Yale, PostDoc@UChicago. Disease genetics, genomics, statistical genetics, data science. We are hiring! She/her.
Hanover, New Hamphire
Joined October 2017
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My department at Dartmouth is hiring! Senior faculty positions broadly in the field of biostatistics, with a focus on cancer.
Tenured or tenure-track biostatistics faculty position at the rank of Associate or Full Professor available @BioMedDataSci and Dartmouth Cancer Center (@DartmouthCancer) at Dartmouth’s Geisel School of Medicine (@GeiselMed)! Learn more and apply here 👉 apply.interfolio.com/158241
Siming Zhao retweeted
Our work led by @liliw_wang on identifying trans genetic effects of gene networks is out in @CellGenomics today!
Trans-eQTL mapping in gene sets identifies network effects of genetic variants dlvr.it/T4w67y
We then applied our method to a few commonly studied traits (IBD, SBP, schizophrenia) and revealed novel candidate genes. Below is an example of a novel candidate gene (UBE2W) cTWAS identified for IBD, whose association falls below standard TWAS cutoff. 5/n
When applying cTWAS on real data, it identified much fewer genes than TWAS, the majority of the TWAS false positive findings were due to confounding by nearby causal variants. 6/n
Our software is available at github.com/xinhe-lab/ctwas. Many thanks to my postdoc advisors @xinhe @mstephens999 co-first author @wescrouse, Sheng Qian and Kevin Luo! Please try our R package and let us know your feedback. Thanks! n/n.
Glad to see our paper, with @xinhe2 @mstephens999 @wescrouse Sheng and Kevin, is out today at @NatureGenet! nature.com/articles/s41588-0…. We developed a new statistical method, causal-TWAS or cTWAS, to reliably identify causal genes in genome-wide association studies (GWAS). 1/n
nearby causal variants or eQTLs of causal genes of the trait can be correlated with the gene under test, thus serving as confounders in the test and resulting in false positives (FP). In simulations, we show previous methods can be severely inflated with FP ( FPR > 50%). 3/n
Many methods have been developed to leverage eQTLs to nominate candidate genes of complex traits, including TWAS, colocalization, mendelian randomization (MR) based methods, etc. However, they all suffer from a key problem: 2/n
Siming Zhao retweeted
I missed tweeting this when posted in Dec. Our attempt to ameliorate some problems with confounding in TWAS. Key idea is to compete (imputed) gene expression and SNPs against one another as explanations for an asssocation. biorxiv.org/content/10.1101/…
Siming Zhao retweeted
Molecular & Systems Biology at the Geisel School of Medicine at Dartmouth is excited to recruit Assistant/Associate Professors to our department. Find information on the breadth of our search and our commitment to faculty diversity at geiselmed.dartmouth.edu/msb/… @GeiselMed @Dartmouth
Siming Zhao retweeted
The University of Chicago, Department of Human Genetics, is searching for a new computational faculty.
apply.interfolio.com/112673
We are a small, friendly department doing top-quality science. Come join us! (Please RT)
Siming Zhao retweeted
Rockefeller's president Richard Lifton, who pioneered the use of genomics to identify the basis for diseases, has been announced as the 2023 recipient of the George M. Kober Medal from the Association of American Physicians. Congratulations!
rockefeller.edu/news/32155-r…
Siming Zhao retweeted
Out now from @Joans and me - (nearly) everything you know about survival analysis in cancer is wrong.
cell.com/cell-reports/fullte…
Siming Zhao retweeted
registration still open for upcoming workshop on eliciting structure in genomics data imsi.institute/eliciting-str… Aug 30-Sept 3. Great line up of speakers. Come join us by zoom!
I am looking for postdocs !Please RT
Post-doctoral Scholar in Biomedical Data Science with @SimingZhao06
Dartmouth College, Hanover, New Hamphire, USA
jobrxiv.org/job/dartmouth-co…
#ScienceJobs
Siming Zhao retweeted
Post-doctoral Scholar in Biomedical Data Science with @SimingZhao06
Dartmouth College, Hanover, New Hamphire, USA
jobrxiv.org/job/dartmouth-co…
#ScienceJobs
I am beyond excited to say that I just started my lab at Dartmouth college. More details from the lab website (simingzhaolab.org/).
Check out our new paper on allele-specific open chromatin QTLs! We provide comprehensive genetic analysis for these variants in human iPSC differentiated neuronal cells. The importance of this class of variants is indicated by its enrichment for risk alleles in brain disorders.
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@xinhe2 @jubao9812 , thanks for letting me involved in this great collaborated project.