Simon Koplev
@KoplevS
@Teichlab member, @Cambridge_Uni PhD.
Checkout the accompanying starnet.mssm.edu site, which we developed to interactively visualize and query the published data and models. Does gene set enrichment analysis for STARNET co-expression network modules along with eQTL fine-mapping of SNPs.
A study in @NatureCVR applies interactive system analyses to infer and characterize gene-regulatory networks active within and across tissues that cause cardiometabolic disease and coronary artery disease. go.nature.com/3A1Y4xq
Research| Sukhavasi et al. reveal sex-specific differences in carotid stenosis. Deep single-cell sequencing shows distinct phenotypes in smooth muscle cells: osteogenic in females and chondrocytic in males, highlighting potential therapeutic targets.
By combining single-cell atlases across the human gastrointestinal tract we discovered a population of inflammatory epithelial cells due to disease-associated metaplasia in the gut @nature @humancellatlas nature.com/articles/s4158…
New preview article in Cancer Cell: Universal and tissue-specific fibroblasts in chronic inflammation and cancer cell.com/cancer-cell/ab…
Excellent collaboration with @CArgmann relating gene expression of cellular senescence with multi-tissue samples of patients with Coronary Artery Disease. #aging
Integration of transcriptomes of senescent cell models with multi-tissue patient samples reveals reduced COL6A3 as an inducer of senescence dlvr.it/SydNtQ
Using #systemsimmunology-based #drugrepurposing @GiannarelliL identifies #antiinflammatory and anti-atherosclerotic functions for #saracatinib.nature.com/articles/s4416… @nyugrossman @IcahnMountSinai @NYULHCVRC @djama85 #CardioTwitter #atheroclerosis 👉rdcu.be/depPi
I'm happy to share my latest research interpreting the genetics of cardiovascular disease using transcriptomic network modeling. Based on multitissue human RNA-seq samples, we identified adipose endocrines affecting liver-mediated metabolic dysfunction. nature.com/articles/s4416…
We've been looking at Coronary Artery Disease (CAD) heritability through multi-tissue gene co-expression, estimating a bound for which gene networks can be expected to account for CAD heritability.
#JACC study investigates the heritability contributions of single nucleotide polymorphisms affecting gene expression in gene regulatory networks causally linked to #cvCAD. fal.cn/s4BH
Join my group at Cambridge University, CRUK CI: Bioinformatics post doc position open, only 6 days left to apply: nature.com/naturecareers/…
Probabilistic inference method for improved characterization of oncogenic phosphosignaling due to PRKAR1A-RET gene fusion.
Our new paper on trying to identify super-rare signaling events deeply buried within (phospho-)proteome data.
Interested in doing a postdoc investigating immune cells in the the tumor microenvironment of ovarian cancer?
Computational Biologist / Bioinformatician wanted: exciting opportunity to join the @MillerLab4 at @Cambridge_Uni at @CRUK_CI, please see jobs.cam.ac.uk/job/20025/
Excited to share our preprint, where we develop a method based on combinations of epitopes along with iterative, multiplex antibody staining to track the spatial organization of tumor clones. biorxiv.org/content/early/…
Our review piece is out trying to connect the genomics of macrophages with trafficking and resolution in cardiovascular disease, including data-driven implications of genes and mechanisms from macrophage eQTL data onlinejacc.org/content/72/18/…
"detection of organic matter preserved in lacustrine mudstones at the base of the ~3.5-billion-year-old Murray formation at Pahrump Hills, Gale crater, by the Sample Analysis at Mars instrument suite onboard the Curiosity rover."
Two new studies in Science use data from @MarsCuriosity to investigate the origins of Martian methane–and organic compounds which could point to ancient life: scim.ag/2LsS9qU scim.ag/2LuNlRX
Detection of inter-tissue communication by correlating the mRNA expression of secreted proteins across multiple tissues in the Hybrid Mouse Diversity Panel cell.com/cell-metabolis…
nature.com/articles/s4158… Our collaboration investigating the genetics of stroke among 520,000 individuals is finally in print -- the single largest contribution to the number of known risk loci and their interpretation for stroke.
#PLOSCompBio: Integration of pan-cancer transcriptomics with RPPA proteomics reveals mechanisms of epithelial ... dx.plos.org/10.1371/journa…
.@LINCSProgram continues to expand #CMap. New #L1000 data flowing into GSE70138 ( broad.io/GSE70138 ); Congrats @BD2KLINCSDCIC for LINCS overview paper in @Cell SystemsCP: fal.cn/qNLM