Computational Biologist. University of Pittsburgh.
Joined July 2018
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Maria Chikina retweeted
Just posted manuscript and code for Trellis, an autoformalization system that aims to take a math paper in LaTeX and output a complete formalization in Lean.
Link has manuscript, code, and viewers with formalizations of recent Ramsey theory breakthroughs.
math.cmu.edu/~wes/trellis.ph…
Maria Chikina retweeted
A 🧵 on some of my intuitions/priors about the genetics of complex and molecular traits in humans (i.e. what I think of as typical), largely motivated by GWAS/QTL studies over the past decade [citing papers with nice figures where possible]
Maria Chikina retweeted
Here Today, Gone Tomorrow: How (Some) Mammals Lost Their Body Hair
new release on lab publication from @KowalczykAmanda and @ChikinaLab
healthcare.utah.edu/publicaf… via @UofUHealth
Maria Chikina retweeted
New preprint with @ChikinaLab:
"The paradoxical nature of easily improvable evidence"
When trying to reason about available evidence which is filtered through the lens of publication bias, what you *don't* see can be as informative as what you do see.
1/2
arxiv.org/abs/2205.14016
Maria Chikina retweeted
This thread on a recent paper from @ProfEmilyOster and others is making the rounds.
It is an extremely critical thread employing strong language, questioning the basic judgement and statistical understanding of the authors.
A quick, polite thread with some comments on this.1/12
Maria Chikina retweeted
Happy to announce our recent paper with @ChikinaLab, @jcmattingly, and Alan Frieze on new Markov chain significance tests in the context of redistricting problems.
It includes examples from the 2019 Common Cause v. Lewis case in North Carolina.
tandfonline.com/doi/full/10.…
Maria Chikina retweeted
Alpha-ketoglutarate (AKG) is a chemical used by the cell to make amino acids, energy & reverse the "DNA methylation" clock. Feeding 18-month old female mice AKG reduced hair greying, frailty & extended median lifespan 10-16% 💪 Worked less well on boys 😒 tinyurl.com/y6qpyrtu
Maria Chikina retweeted
Is there a seasonal component to the COVID-19 mortality rate?
A thread with some figures with @ChikinaLab on what seems to be a question of underestimated importance. 🧵 1/8
Slightly longer version here: math.cmu.edu/~wes/aus.html
Maria Chikina retweeted
#MLCB2020 is happening! A fully independent virtual conference this year, Nov 23-24. Checkout the amazing line up of keynote speakers: mlcb.org/
Abstract deadline: Sept 30th. @anshulkundaje @suinleelab @james_y_zou @david_a_knowles @QuonBio
Maria Chikina retweeted
Not enough effort is being spent on understanding whether seasonality has a meaningful effect on the fatality rate of COVID (separate from any effect on transmission).
Maria Chikina retweeted
I am glad to finally share this huge effort by @nude_mole_rat and the culmination of a great collaboration with @psalmotoxin that started nearly 6 years ago as a cool idea for a side project .....
nature.com/articles/s41586-0…
Maria Chikina retweeted
Why is finding the genetic basis of human longevity so difficult? The unique way humans age may be the answer. Thanks @ConversationUS for letting me write this cool piece!
theconversation.com/from-mar…
Maria Chikina retweeted
Masks are such an important tool in the COVID fight that extra care must be taken to not create conditions which legitimize backlash against mask mandates with executive orders that err on the side of restriction.
The previous order already required masks in most settings.
Maria Chikina retweeted
The new stricter mask order just issued by @GovernorTomWolf and @SecretaryLevine is being interpreted by childcare centers to mean that 2-year olds must wear masks.
Many 2 year olds are still learning to talk.
All will need to have their masks constantly adjusted by caregivers.
Maria Chikina retweeted
We are very excited to present you Proximity Sequencing (Prox-Seq): a new method for simultaneous quantification of proteins, protein complexes and mRNA in single cells: biorxiv.org/content/10.1101/…
Maria Chikina retweeted
I am excited to share our latest work on single-cell analysis of SARS-CoV-2 infection!
biorxiv.org/content/10.1101/…
Amazing collaboration with @WilenLab @EllenFoxman, and by incredibly talented first authors @neal_ravindra @MiaAlfajaro @VictorGasque
#SARSCoV2 #SingleCell
Maria Chikina retweeted
We are excited to share ‘Host-viral infection maps reveal signatures of severe COVID-19 patients’ cell.com/cell/fulltext/S0092… led by @bost_pierre and @AmirGiladi. Collab with the Zheng Lab from the Shenzhen Third People’s Hospital and Benno Schwikowski from @institutpasteur 1/13
Maria Chikina retweeted
Good thread by @mlipsitch on the effect of heterogeneity on the herd immunity threshold.
It is reasonable to expect herd immunity to be reached at lower infection levels than naive models suggest, and quite possibly at much lower levels.
Two preprints recently make an important point: for any infection, including COVID-19, it is possible that herd immunity can be accomplished with more than 1/R0 of the population still susceptible. The first was by Gabriela Gomes et al. @LSTMnews medrxiv.org/content/10.1101/…
Maria Chikina retweeted
After I raised concerns Friday about the mistake of ignoring heterogeneity when considering herd immunity, @CT_Bergstrom offered a response.
My reply is in the thread below. Basically: the more complex model he gives models locality but not heterogeneity.
xitter.cf/WesPegden/status/12569…
