Abby Thurm
@abbythurm
Followers
277
Following
1K
Media
8
Statuses
138
MD/PhD Student @StanfordMed | thinking about all things RNA in gene expression @BintuLab | B.S. @uclachem | she/her
Joined April 2020
Do human RNA-binding proteins have modular regulatory domains that downregulate RNA lifetimes? Our preprint @BintuLab studying this question is now out on bioRxiv, where we indeed identify small domains in RBPs that potently induce RNA degradation! https://t.co/nOsgx1a3gA (1/9)
biorxiv.org
RNA regulation plays an integral role in tuning gene expression and is controlled by thousands of RNA-binding proteins (RBPs). We develop and use a high-throughput recruitment assay (HT-RNA-Recruit)...
5
51
196
Our new pre-print from the Greenberg and Churchman labs shows that activity-dependent modulation of RNA stability is a major, and underappreciated, mechanism of gene regulation in neurons. Tutorial below 👇 https://t.co/DEvnKvqjJz (1/11)
biorxiv.org
Neuronal activity shapes brain development and refines synaptic connectivity in part through dynamic changes in gene expression. While activity-regulated transcriptional programs have been extensiv...
2
36
128
My brilliant, insightful friend @taniafabolous published an op-ed in @Newsweek about her experience as a geneticist watching eugenicist theories exemplified by the Sydney Sweeney ad regain popularity in modern culture. Please read here:
newsweek.com
Consumers should stand up for the diversity we want by boycotting companies like American Eagle that reject these values.
0
2
6
For innate immune cells, the lack of diverse receptor rearrangements has prevented the study of clonal evolution of the innate immune system in human tissues and tumors. With @satpathology and @caleblareau, I’m delighted to share my PhD work that tackles this challenge:
Clonal lineage tracing of innate immune cells in human cancer https://t.co/uw2udDLVPp
#biorxiv_genomic
3
23
106
Many proteins bind RNA, yet we still don’t know what RNAs most bind because methods map one RBP at a time. In @CellCellPress, with the Jovanovic lab, we describe SPIDR �� a method for mapping the RNA binding sites of dozens of RBPs in a single experiment. https://t.co/Zs2Rn35D3s
9
116
403
Our preprint describing the Range Extender element, which is required and sufficient for long-range enhancer activation at the Shh locus, is out in @Nature. https://t.co/qFrjw55BtX
How do enhancers work over distances that sometimes exceed megabases? Excited to share our work led by @gracecbower where we uncover a unique sequence signature globally associated with long-range enhancer-promoter interactions in developing limb buds: https://t.co/n0p7BdxSdq 1/
18
56
251
🚨 New Preprint 🚨 A continuous landscape of signaling encodes a corresponding landscape of CAR T cell phenotype How can we tune JAK/STAT signaling to create better immune cell therapies? https://t.co/ejW8rpxzmW
12
57
186
Thanks to Geo and @BintuLacra for the writing help and @AnnualReviews for the invitation. Let us know what you think, and apologies in advance for any novel works we didn't have the space to cite!
0
0
1
Interested in synthetic approaches to both understand and manipulate gene expression? We @BintuLab wrote a review that discusses just that - how modern low- and high-throughput approaches can dissect gene regulation at the DNA, RNA, and protein level. https://t.co/C9QuEBGfbs
1
3
24
It's almost time for our brand-new EMBL Conference 'The expanding world of RBPs' to start! 🥳 Follow along for live updates here and on Bluesky ( https://t.co/CivBVcUdnV), and check out our event reporter @AyushiRehman for some first-hand participant insights! 👩🔬 #EMBLRBP
0
2
3
Very proud of my graduate students @adelefrancisxu and Zijian Zhang & key members of our lab and collaborators @GarryPNolan & Sharon Pitteri lfor the incredibly hard work to characterize subcellular ribosomes.
science.org
Millions of ribosomes are packed within mammalian cells, yet we lack tools to visualize them in toto and characterize their subcellular composition. In this study, we present ribosome expansion...
11
61
225
Our work using thermodynamic principles to link in vitro TF affinities and kinetics to single-molecule chromatin states in cells is now on bioRxiv! Amazing effort by first author @juliaschaepe in @WJGreenleaf lab: https://t.co/NG2bXd8SfJ
@Stanford @scilifelab @Stockholm_Uni [1/9]
biorxiv.org
The molecular details governing transcription factor (TF) binding and the formation of accessible chromatin are not yet quantitatively understood – including how sequence context modulates affinity,...
4
25
92
I’m excited to share the first preprint out of the Altemose Lab! This stems from a heroic effort by Dr. Matt Franklin @matt_franklin_ (who's on the job market!), who made surprising discoveries regarding some of the most mysterious regions of the genome.
biorxiv.org
Eukaryotic genomes are frequently littered with large arrays of tandem repeats, called satellite DNA, which underlie the constitutive heterochromatin often found around centromeric regions. While...
12
50
187
I’m so excited to launch my independent career in a big way with the @NIH_CommonFund!! This is truly a testament to the wonderful mentors in my life and I hope I make them proud!
35
11
175
BREAKING NEWS The 2024 #NobelPrize in Physiology or Medicine has been awarded to Victor Ambros and Gary Ruvkun for the discovery of microRNA and its role in post-transcriptional gene regulation.
544
12K
28K
I’m amped to share our new work to decrypt transcriptional repressors, now on bioRxiv: https://t.co/BeKDmg3rUy We paired deep mutational scans with machine learning to predict and even tune repressor activity. (1/8)
4
27
94
Check out our collaboration with @Cheers2LO on a SEISMICgraph tool for chemical probing data analysis and showing that RNA chem mods kill riboswitch function https://t.co/s6sXPomupg . RNA structure aficionados give it a try !
1
5
31
Our latest work is now published in @MolecularCell! We discovered new RNA-binding zinc finger proteins and demonstrated their functions in RNA splicing, stability, and polyadenylation. Congrats to 1st author @MayaGosztyla and our fantastic collaborators.
cell.com
Gosztyla et al. identify the RNAs bound by zinc-finger proteins and demonstrate the roles of zinc-finger proteins in the RNA life cycle. They highlight two zinc-finger proteins of particular intere...
1
19
115
🚨Excited to share another paper in @MolecularCell!🚨 In collab w/ @Columbia’s Marko Jonvanoic, Lena Street, & @HoustonMethodist’s Kris Brannan, we mapped RNA-aware, RBP-centric protein-protein interactions (PPIs) across the mRNA life cycle in human cells! https://t.co/F1W4js2Ad7
0
30
106