Jacob Roth
@JacobRoth13
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MD/PhD student and aspiring physician scientist. #doubledocs he/him/his
Joined September 2015
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. https://t.co/XOy9HZLbfD
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Really excited to unveil https://t.co/3DKXXBuxFD, 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.
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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: https://t.co/n1MIumdmGe lead by @B_Lorton23 Chris Warren @HumairaIlyas8 #biorxiv 1/7
biorxiv.org
Histone chaperones–structurally diverse, non-catalytic proteins enriched with acidic intrinsically disordered regions (IDRs)–protect histones from spurious nucleic acid interactions and guide their...
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Discover insights into #GeneTherapy, #NaturalLanguageProcessing in scientific research, and more in our latest e-newsletter! Subscribe to stay informed: https://t.co/YcslwL0NHo 📰
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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" https://t.co/q2ceSs8X5s ✨Congrats @bis_was_here Omar Muñoz @KyoohyunK Carsten Hoege @HymanLab @DShechter @GuckLab @VasilyZaburdaev✨
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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!
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Massive misuse of chemical probes undermines the utility of these tools https://t.co/VrYv59Uy6u
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Anyone familiar with an R package for visualizing these kinds of gene constructs, as in dnaplotlib (python) https://t.co/mhQLldvkVP ggbio and other genome browser / track-based tools aren't really what I'm looking for. #Rstats
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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.
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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
Nature Genetics - Analysis of multiple tumor types, cancer cell lines and adult tissues identifies tumor-specific transposable-element-chimeric transcripts. Mass spectrometry data confirm that many...
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3D genome organization around nuclear speckles drives mRNA splicing efficiency https://t.co/8sXEpX0Ezx
#bioRxiv
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A combination of drugs has shown promise for treating children with rhabdomyosarcoma. But can the potential therapy get to clinical trials? https://t.co/7yKaP3pFUI
#ChildhoodCancer @cogorg
cancer.gov
An NCI study in mice has identified a potential new drug combination for children with rhabdomyosarcoma, but one of the drugs, ganitumab, is no longer being made.
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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 https://t.co/h8A9BJpfX9
https://t.co/7qVIoXajPC
@NatMetabolism a🧵
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For readers interested in targeting RNA structures with small molecules, which Matthew Disney is presenting on at #BostonDOT22 now, here's a recent review https://t.co/Yu6UTvG7QC
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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
https://t.co/2sjWSfJJ8n
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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
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You've probably installed a bunch of packages in R. But did you know they are a fantastic way to organise your own analysis? A thread on how to write your own package in R. #rstats #coding #datascience
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Excited to share our latest work on Splicing-dependent transcriptional activation! Ever wondered how to activate expression of a gene? Here is one strategy 🙌 https://t.co/fOTtULJE1U 1/12
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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. https://t.co/i0WUFQFz34
pipinghotdata.com
Labelled data workflows with applications in data dictionaries, summary tables, ggplot, and exporting.
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