Caitlin Guccione

Our work on filtering host DNA from WGS data now out in @NatureComms! Congrats to first authors @c_gucci3 and Lucas Patel @KnightLabNews - their methods are freely available to use on your own data 🧬 nature.com/articles/s4146…

How do microbial communities assemble during precancer & cancer evolution? Excited to share our new preprint on modeling of microbial evolution in Barrett's esophagus and esophageal adenocarcinoma! 🦠 Led by PhD student Caitlin Guccione biorxiv.org/content/10.110… #barretts #mathonco

📢📰 "Circular extrachromosomal DNA promotes tumor heterogeneity in high-risk medulloblastoma" Congratulations to Owen Chapman, @SBPChavezLab, and Jill Mesirov's lab on their careful survey examining the clinical and cellular consequences of ecDNA. nature.com/articles/s4158…

Our paper is out now in Bioinformatics! And check out the accompanying R package on CRAN to apply to your own single-cell data. Congrats @BrianJohnson_05 and Yubo Shuai! cloneRate: fast estimation of single-cell clonal dynamics using coalescent theory academic.oup.com/bioinformatics…

Check out this awesome opportunity in my lab! @yosoykit and the rest of the QCC team have been great to work with.

You are what you excrete? 💩🧬 Is human DNA in faecal microbiome a problem? The answer seems to be yes. Read this News & Views to learn more, by @KnightLabNews and colleagues👇 nature.com/articles/s4156…

Never have I been more proud of a title 😁 Check out our N&V out now in @NatureMicrobiol - led by PhD student @c_gucci3 with @KnightLabNews

Finally, Brian created a nice R package called cloneRate to recreate our results and to apply our methods to your own data. Check it out! github.com/bdj34/cloneRat… 5/5 #mathonco #earlydetection

How fast does a clone grow? We used math and single cell-derived DNA sequencing data to find a simple solution – new preprint led by PhD student @BrianJohnson_05! Estimating single cell clonal dynamics in human blood using coalescent theory biorxiv.org/content/10.110… 🧵👇 1/5

Day 3 of #MoffittIMO and the competition is heating up! #TeamOrange 🍊subgroups showcase progress... what an amazing group of talented folks! @mathoncbro @luddyka @TuratiVirginia @markrt_ @gustavl33024975 @jrm_black @dbergman78 @helena_coggan @S_Marzban @c_gucci3

(1/5) Did you know that there are bacteria in human tumors? Well, this is old news now 😉. Our new study, in collaboration with @StraussmanR+@TPilpel+@KnightLabNews, is featured on the cover of @CellCellPress, showing that human tumors contain fungi too! cell.com/cell/fulltext/…

Last talk at the "Mathematical modelling of microbiomes" in Plön @MPI_EvolBio by Caitlin Guccione "Evolutionary modeling of microbiome community assembly in the context of human pre-cancer progression" #MathModellingMicrobiomes

Our review on the microbiome (bacteria, virus, archaea, and fungi) across life is out! Reviewing this broad topic put into perspective how much we know and how much more is waiting to be discovered. Thanks to @hazeldilmore (co-first) @Zach_Burcham @DirtySci @KnightLabNews

Happy 2 year anniversary to the QCC lab! 🥳 Thank you to our amazing trainees, collaborators, and my husband Ben for helping with the lifting of a fridge today 😂 best is yet to come! #mathonco

Having fun debating the importance of theory in cancer research with @Mdnicholson3 @DanielTemko @EvenMMyklebust @c_gucci3 @drjaydutt #CIRMcancer22

Such an exciting talk by @pratibhajagann_ at the @PacBio 2022 Discoveries Roadshow. What a star.

Very excited to share that I am a 2022 recipient of the AGA Research Scholar Award! Lots of work in IBD and mathematical modeling to come, in great AGA company. Special thanks to mentors @trevoragraham @samirguptaGI for all the support. #IBD #mathonco thank you @AmerGastroAssn

Our paper on phylogenetic robust Aitchison PCA (RPCA) and compositional tensor factorization (CTF) is now available. journals.asm.org/doi/10.1128/ms… Thanks to @KnightLabNews @mcdonadt @LiatShenhav @yoshikivb @gibsramen @LabAllaband @sejsong (and those not on Twitter)

It's #LynchSyndromeAwarenessDay! And our Review article is published online @APandT Lynch Syndrome-a mechanistic and clinical management update. I learned so much working w/ Dr. Rick Boland and @samirguptaGI - looking forward to more in this space for LS onlinelibrary.wiley.com/doi/10.1111/ap…

Benchmarking of existing methods of filtering non-microbial sequences from WGS/shotgun data in both simulated and real data across sample types/extraction protocols. @mSystemsJ @KnightLabNews journals.asm.org/doi/10.1128/ms…