Jacob Roth

@kreidermr1 Well you could have led with the fact that it’s your study/work! Looking forward to reading. Thanks for sharing: nature.com/articles/s4146…

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

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.

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

Discover insights into #GeneTherapy, #NaturalLanguageProcessing in scientific research, and more in our latest e-newsletter! Subscribe to stay informed: go.nih.gov/GdTtwPv 📰

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:

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!

@CTTriggs @0_minyaaa Glad to see this had already been commented 👌🏼

@0_minyaaa Funnily enough, NileRed has a video where he used NIST standards to make the world's "purest" cookie. A singular cookie, and perhaps also the world's most expensive! youtu.be/crjxpZHv7Hk

I went down a rabbit hole today and here are three rabbits that I found as examples.

Massive misuse of chemical probes undermines the utility of these tools bit.ly/3O3fwul

@ThePhDPlace Free seminar food

Why did you want to do a PhD? Wrong answers only.

Anyone familiar with an R package for visualizing these kinds of gene constructs, as in dnaplotlib (python) github.com/VoigtLab/dnapl… ggbio and other genome browser / track-based tools aren't really what I'm looking for. #Rstats

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/github/pachter…

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.

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/s4158…

3D genome organization around nuclear speckles drives mRNA splicing efficiency biorxiv.org/cgi/content/sh… #bioRxiv

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/ca… #ChildhoodCancer @cogorg

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/s4225… rdcu.be/cXXCe @NatMetabolism a🧵

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

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/s4159…

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