Biologics Downstream Development Scientist @ BMS | Ph.D., Chemical Engineering @hsalis Synthetic Biology Lab
Joined November 2014
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Daniel Cetnar retweeted
This is a great paper from the @hsalis lab.
- Measure the decay rates of 50,000 mRNAs in bacteria.
- Use biophysical models + ML to build models of mRNA stability.
- Profit.
And a good reminder of what's possible when one turns a biological problem into a sequencing problem!
Daniel Cetnar retweeted
Designing synthetic mRNAs 🧬 for optimal stability and expression? Checkout our work led by @DanielCetnar on biophysics infused machine learning approaches for delineation of mRNA degradation kinetics ⚡ out now in @NatureComms nature.com/articles/s41467-0…
I am pleased to announce our latest publication ‘Predicting synthetic mRNA stability using massively parallel kinetic measurements, biophysical modeling, and machine learning’ in @NatureComms
The developed model quantifies the key interactions that collectively control mRNA stability in bacterial operons and predicts how changing mRNA sequence alters mRNA stability, which is important when studying and engineering bacterial genetic systems.
Daniel Cetnar retweeted
NEW PAPER led by @grace_vezeau! We rationally engineered synthetic riboswitches to carry out sense & respond for human biomarker proteins [mCRP and IL32-gamma] that indicate disease or infection. 16-fold activation without trial-and-error!
nature.com/articles/s41467-0…
Daniel Cetnar retweeted
Our manuscript on Promoter Calculator was published today in @NatureComms! Many thanks to @bioalgorithmist and @hsalis for helping to complete the project. Debug genetic systems and forward engineer new promoter sequences. Read more here: nature.com/articles/s41467-0…
If you are tired of Wordle, my friend created a new word game called Neword! Try it here: purefit.life/neword/
Daniel Cetnar retweeted
See our recent work at the @hsalis #synbio lab. DNA sequence in --> transcription profile out. Validated on 17396 sig70 promoters. Use it to identify cryptic promoters in genetic systems or to forward engineering synthetic promoters. Work done by myself and @bioalgorithmist!
Automated Model-Predictive Design of Synthetic Promoters to Control Transcriptional Profiles in Bacteria biorxiv.org/cgi/content/shor… #bioRxiv
Daniel Cetnar retweeted
Congratulations to Penn State chemistry's newest graduate, Dr. Joshua Kauffman! Josh, who is a member of the Sen group (@ayusmansen), recently defended his thesis.
Daniel Cetnar retweeted
NEW PAPER: We uncover & quantify how the 5' UTR, intergenic, and 3' UTR regions control mRNA decay + develop predictive biophysical models. Big 👏🙇 to @DanielCetnar who characterized 82+ operons using RT-qPCR to show clear cause-effect outcomes.
pubs.acs.org/doi/10.1021/acs…
Daniel Cetnar retweeted
This Week on Friday, September 4, 2020 at 2 PM PST We are Hosting Professor, Xun Tang.
Talk Title "Modeling and control for molecular self-assembly and the construction of genetic circuits"
Apply at BioCompute.Club
Daniel Cetnar retweeted
ATTENTION #synbio: Design 1000s of non-repetitive genetic parts using the Non-Repetitive Parts Calculator. Ayaan Hossain @bioalgorithmist leads you through the step-by-step process for promoters, insulated RBSs, terminators, and toehold RNA switches:
github.com/ayaanhossain/nrpc…
Daniel Cetnar retweeted
What sequences & structures control mRNA stability in bacterial operons?
Announcing a new @biorxivpreprint with lead @DanielCetnar that provides *clear* and *quantitative* sequence-structure-function relationships + biophysical models that explain *why*
bioRxiv: Systematic Quantification of Sequence and Structural Determinants Controlling mRNA stability in Bacterial Operons dlvr.it/RcBhMj
Daniel Cetnar retweeted
Hat tip to @alexcampreis @halper_1 @grace_vezeau @DanielCetnar @bioalgorithmist @phillip_clauer for their great work!
The @hsalis Lab at @Penn_State showed that simultaneous and stable coexpression of up to 28 single-guide RNAs can regulate 20+ genes w #CRISPR interference! Potential for reprogramming cells in many #SynBio #EngBio applications. nature.com/articles/s41587-0… @NatureBiotech
