MD/PhD student and aspiring physician scientist. #doubledocs he/him/his
Joined September 2015
- Tweets1.2K
- Following1.4K
- Followers309
- Likes4.8K
Jacob Roth retweeted
We are profoundly grateful that Dr. Ruth Gottesman, Professor Emerita of Pediatrics at @EinsteinMed, has made a transformational gift to #MontefioreEinstein—the largest to any medical school in the country—that ensures no student has to pay tuition again. bit.ly/3wvBj7y
Jacob Roth retweeted
Really excited to unveil sandbox.bio, an interactive playground for learning bioinformatics command-line tools like bedtools, bowtie2, and samtools (and more to come!) 🧑💻 🧬
Thanks to @aaronquinlan, @BenLangmead, and @mike_schatz for feedback and tutorial ideas.
Jacob Roth retweeted
Ever wonder why histone chaperones have acidic tails?
Our new preprint reveals they mimic DNA to regulate chromatin! Glutamate-glutamylation enhances their mimicry.
Dive in: doi.org/gsrvkj lead by @B_Lorton23 Chris Warren @HumairaIlyas8 #biorxiv 1/7
Jacob Roth retweeted
Very excited to share this preprint we contributed to - this work is generally important as it shows that the nuclear/cytoplasmic *density* ratio is highly conserved.
This is a unique insight has broad implications for how the genome is regulated. See thread below:
How dense is the nucleus?
Check our preprint "Conserved nucleocytoplasmic density homeostasis drives cellular organization across eukaryotes" biorxiv.org/content/10.1101/…
✨Congrats @bis_was_here Omar Muñoz @KyoohyunK Carsten Hoege @HymanLab @DShechter @GuckLab @VasilyZaburdaev✨
Jacob Roth retweeted
Our panel on #doubledocs interviews Q+A is about to start! Looking forward to hearing from our excellent panelists from @MSU_DOPhD, @Columbia #MSTP, @UWMSTP, and @DukeMSTP. Join us for our interactive session, keep track of the conversation with this thread, or watch on @YouTube!
Jacob Roth retweeted
Massive misuse of chemical probes undermines the utility of these tools bit.ly/3O3fwul
Jacob Roth retweeted
Anyone familiar with an R package for visualizing these kinds of gene constructs, as in dnaplotlib (python) github.com/VoigtLab/dnaplotl… ggbio and other genome browser / track-based tools aren't really what I'm looking for. #Rstats
Jacob Roth retweeted
I created a Colab tutorial that checks if a gene/transcript ID has an associated crystal structure, checks if related proteins with associated crystal structures are available, and then compares those to a de novo structure prediction:
colab.research.google.com/gi…
Jacob Roth retweeted
Only a matter of time before a paper formalized this exercise:
Automated #scRNAseq cell type annotation with GPT4, evaluated across five datasets, 100s of tissues & cell types, human and mouse.
A🧵below with my thoughts on how such tools will change how #Bioinformatics is done.
Jacob Roth retweeted
These kinds of non-canonical (mis-expressed) tumor antigens are so fascinating, and warrant greater attention! Exciting to think about how their expression might be detected / enhanced / targeted in our patients. Great step forward in this paper. nature.com/articles/s41588-0…
Jacob Roth retweeted
3D genome organization around nuclear speckles drives mRNA splicing efficiency biorxiv.org/cgi/content/shor… #bioRxiv
Jacob Roth retweeted
A combination of drugs has shown promise for treating children with rhabdomyosarcoma. But can the potential therapy get to clinical trials? cancer.gov/news-events/cance…
#ChildhoodCancer @cogorg
Jacob Roth retweeted
Your gut is producing sulfide as you read this tweet! Join @anaerobicwolf Reese Hitchings and #teamsulfide @EinsteinMed with @EdGoluch reporting a novel mechanism of xenobiotic metabolism by the gut microbiome nature.com/articles/s42255-0… rdcu.be/cXXCe @NatMetabolism
a🧵
Jacob Roth retweeted
For readers interested in targeting RNA structures with small molecules, which Matthew Disney is presenting on at #BostonDOT22 now, here's a recent review rdcu.be/cXPDw
Jacob Roth retweeted
Out today and freely available, a tool many in the image analysis community have been waiting for!
PyImageJ: A library for integrating ImageJ and Python
@EliceiriK @UWMadisonLOCI @ctrueden @CiminiLab @DrAnneCarpenter
nature.com/articles/s41592-0…
Jacob Roth retweeted
Hey #doubledocs! Quick poll for those of you who took a *scored* STEP1 exam but will be applying to residency with an MD-cohort with predominantly (or all) *pass-fall* results... would you prefer:
@A_P_S_A @Inside_TheMatch @jbcarmody #MedStudentTwitter @medstudentchat
27%Convert all scores to PF
12%Indiv choice: score or PF
17%Maintain numeric score
45%show me the answers
364 votes • Final results Jacob Roth retweeted
Excited to share our latest work on Splicing-dependent transcriptional activation! Ever wondered how to activate expression of a gene? Here is one strategy 🙌 biorxiv.org/cgi/content/shor… 1/12
Jacob Roth retweeted
Pleased to shared that I have been promoted to Lead Data Scientist @ThePCCTC! 🎉😊
In celebration, here is a quick blog post describing workflows & benefits of variable labels in #rstats.
pipinghotdata.com/posts/2022…
Jacob Roth retweeted
This is highly personal.
Feel free to decline, but if you want to join in communal student debt impact transparency…😊
What specialty are you in?
How much debt did you graduate with?
How many yrs after graduating med school will it take (or did it take) to pay off your debt?
Jacob Roth retweeted
Here are some tips to supercharge your ggplotting skills #RStats
(1/n)