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Seth Blackshaw

@sethblackshaw.bsky.social
3.4K followers 833 following 322 posts

Professor of Neuroscience. Studying neural development, regeneration, and control of innate behaviors at Johns Hopkins.

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Seth Blackshaw @sethblackshaw.bsky.social · 11/06/2026
This perspective piece reviews new omics, developmental genetic, and cell lineage studies to critically review current models of developing forebrain organization. Spoiler: there are _serious_ problems with the prosomere model.
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Seth Blackshaw @sethblackshaw.bsky.social · 26/02/2026
Proud to have been part of this work.
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Michel Cayouette @michelcayouette.bsky.social · 04/02/2026
Happy to announce that our latest paper is now out! Have you ever wondered how neural tissues control their size? In this paper, we show that cell division orientation is critical in both the cortex and retina. www.science.org/doi/10.1126/...
science.org
Oriented cell divisions induce basal progenitors and regulate neural expansion across tissues and species
A fundamental role for division orientation in progenitor output driving cortical and retinal growth is revealed.
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Seth Blackshaw @sethblackshaw.bsky.social · 30/01/2026
Indeed.
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Elizabeth Manning @emmanning.bsky.social · 26/01/2026
Excited to finally share the final/final.doc version of our paper. It's been a journey, but very proud of the result. Well done to all involved, especially @elsieplace.bsky.social @kchinnaiya.bsky.social , @thomasdwkim.bsky.social, @sethblackshaw.bsky.social 👏👏 www.nature.com/articles/s41...
nature.com
Resolving forebrain developmental organisation by analysis of differential growth patterns - Nature Communications
Experiments on the embryonic chick brain reveal distinct directional growth patterns and a tripartite hypothalamus, challenging the classic segmented prosomere model and offering an updated view of ho...
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Seth Blackshaw @sethblackshaw.bsky.social · 16/01/2026
Second paper is a collaboration with Jim Handa's lab at Hopkins. Cigarette smoke exposure induces aging-related molecular changes in both mouse and human retinal pigment epithelium. www.pnas.org/doi/10.1073/...
pnas.org
PNAS
Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...
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Seth Blackshaw @sethblackshaw.bsky.social · 16/01/2026
The lab's first paper of the new year is out. In it, we investigate the role of the late stage retinal progenitor-enriched SoxE family factors Sox8 and Sox9 in controlling retinal development./1 www.biorxiv.org/content/10.6...
biorxiv.org
Sox8 and Sox9 regulate differentiation and nuclear positioning of retinal Müller glia
Temporal patterning of retinal progenitor cells governs the sequential generation of retinal cell types, with gliogenesis occurring late in development. Sox8 and Sox9, members of the SoxE transcription factor family, are highly expressed in late-stage retinal progenitor cells and mature Müller glia, yet their functional roles remain incompletely defined. Here we employed gain- and loss-of-function approaches, single-cell multiomic profiling, and injury models to investigate Sox8/9 function. Overexpression of SOX8 and/or SOX9 in early-stage retinal progenitor cells suppressed early-born cell fates and promoted photoreceptor generation, consistent with a role in late-stage temporal identity. Conversely, conditional deletion of Sox8 and/or Sox9 in late-stage progenitors did not impair Müller glia specification, but caused radial displacement of Müller glia nuclei into the outer retina and modest changes in glial gene expression. Loss of Sox8/9 in mature Müller glia modestly increased proliferation post-injury without inducing neurogenic competence. These findings suggest that Sox8/9 are dispensable for gliogenesis and repression of neurogenic competence, but are essential for proper laminar positioning and maturation of retinal Müller glia. ### Competing Interest Statement S.B. is a cofounder, shareholder, and scientific advisory board member of CDI Labs LLC, and receives research support from Genentech. National Eye Institute, https://ror.org/03wkg3b53, R01EY036173
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Cold Spring Harbor Laboratory @cshlnews.bsky.social · 13/01/2026
We’re thrilled to share that CSHL Associate Professor Jeremy Borniger (@jborniger.bsky.social) has received the 2026 Bakewell Emerging Leader Award from The Mark Foundation. His lab is exploring synthetic torpor—a hibernation-like state—as a novel way to slow cancer growth. #ScienceMakesLifeBetter
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Nature Communications @natcomms.nature.com · 14/01/2026
New featured article! Resolving forebrain developmental organisation by analysis of differential growth patterns @emmanning.bsky.social @elsieplace.bsky.social @kchinnaiya.bsky.social @sethblackshaw.bsky.social @thomasdwkim.bsky.social dlvr.it/TQLWh5
Several stages of brain development in a chick embryo
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Seth Blackshaw @sethblackshaw.bsky.social · 08/01/2026
Nice summary on our paper on mechanisms controlling development and evolution of the cone-dominant ground squirrel retina, which is now in final form at eLife. www.lifescienceeditors.com/2026/01/06/h...
lifescienceeditors.com
How ground squirrels enhanced their retinas - Scientific editing and writing experts - Life Science Editors
Scientific editing and writing experts for manuscripts and grants
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Development, Regeneration and Neurophysiology @drn-sheffield.bsky.social · 08/01/2026
rdcu.be/eX8JD DRN new publication alert: Manning et al., 2025, @emmanning.bsky.social, co-led by Marysia Placzek and Elsie Place @elsieplace.bsky.social, in collaboration with Seth Blackshaw @sethblackshaw.bsky.social
rdcu.be
Resolving forebrain developmental organisation by analysis of differential growth patterns
Nature Communications - Experiments on the embryonic chick brain reveal distinct directional growth patterns and a tripartite hypothalamus, challenging the classic segmented prosomere model and...
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Samer Hattar @samerhattar.bsky.social · 07/01/2026
A new paper from my lab. I will have a full description soon. rdcu.be/eX1Ld
rdcu.be
ipRGC properties prevent light from shifting the SCN clock during daytime
Nature - The inability of intrinsically photosensitive retinal ganglion cells to shift the circadian clock in the suprachiasmatic nucleus during daytime is caused by light-dependent depolarization...
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Seth Blackshaw @sethblackshaw.bsky.social · 22/12/2025
It's been quite a year for hypothalamic development. With this heroic analysis of developmental cell lineage, coupled with earlier multimode-based gene regulatory network analysis, the prosomere model looks like it has passed into history. www.nature.com/articles/s41...
nature.com
Resolving forebrain developmental organisation by analysis of differential growth patterns - Nature Communications
Experiments on the embryonic chick brain reveal distinct directional growth patterns and a tripartite hypothalamus, challenging the classic segmented prosomere model and offering an updated view of ho...
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Elise Cutts @elisecutts.bsky.social · 11/12/2025
On our evolutionary branch, a few genes got an update unique to humans. Some used to think those variants might have been difference that made all the difference: the key to becoming human. This month's Q&A with Barbara Molz @mpi-nl.bsky.social gets into new results that tell a different story. 🧪
reviewertoo.com
There's no gene for being human
A Q&A on genetics and human evolution with Barbara Molz
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Seth Blackshaw @sethblackshaw.bsky.social · 12/12/2025
Second, not only does Ptpb1 not repress neurogenesis in adult glia, it doesn't do much in the developing CNS either. Scratch another master regulator off the list. doi.org/10.7554/eLif...
doi.org
Ptbp1 is not required for retinal neurogenesis and cell fate specification
Loss of function of Ptbp1 in retinal progenitors leads to changes in RNA splicing but does not affect neurogenesis and cell fate specification.
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Seth Blackshaw @sethblackshaw.bsky.social · 12/12/2025
A couple of papers are finally out too. First, Meis factors are (unfortunately) not sufficient to respecify temporal identity in retinal progenitor cells. www.nature.com/articles/s41...
nature.com
Overexpression of Meis factors in late-stage retinal progenitors yields complex effects on temporal patterning and neurogenesis - Scientific Reports
The vertebrate retina serves as a model for studying neurogenesis and cell fate specification, with retinal progenitor cells following a tightly regulated temporal sequence to generate distinct cell t...
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Seth Blackshaw @sethblackshaw.bsky.social · 12/12/2025
Recent Hopkins Hub article highlighting our work on optic nerve regeneration in axolotl. Congratulations to Ted! hub.jhu.edu/2025/12/11/s...
hub.jhu.edu
Could axolotls hold the key to restoring human vision?
Axolotls can regenerate optic nerves, retinas, and parts of their brain. Provost's Undergraduate Research Award-winner Ted Chor wants to understand how.
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Seth Blackshaw @sethblackshaw.bsky.social · 07/10/2025
Very proud to have Leah working with us.
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Jane Coffin Childs Fund for Medical Research @jcchildsfund.bsky.social · 07/10/2025
Leah Elias, Ph.D., is our Featured Fellow! Elias' postdoctoral research in @sethblackshaw.bsky.social's lab is dissecting how the need for restorative sleep is encoded into our brains at the level of cellular circuits and molecular signals. Her findings may reveal novel therapeutic targets ... 1/
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Seth Blackshaw @sethblackshaw.bsky.social · 30/09/2025
Exciting new study shows that organoid-derived human retinal ganglion cells survive when apoptosis is genetically inhibited.
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Seth Blackshaw @sethblackshaw.bsky.social · 12/09/2025
Our latest manuscript is out, and this one tackles the problem of cellular aging in the retina, using comparative multiomic analysis of zebrafish, mouse, and humans. What led us to work on aging after studying development and regeneration? Explainer follows./1 www.biorxiv.org/content/10.1...
biorxiv.org
Comparative single-cell multiomic analysis reveals evolutionarily conserved and species-specific cellular mechanisms mediating natural retinal aging.
Biological age is a major risk factor in the development of common degenerative retinal diseases such as age-related macular degeneration and glaucoma. To systematically characterize molecular mechani...
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George Kafetzis @gkafetzis.bsky.social · 12/09/2025
👁️The retina — strikingly conserved across vertebrates, but an oddity among bilaterians! So how did it evolve? With @mikebok.bsky.social, @neurofishh.bsky.social and @denilsson.bsky.social, we argue that retinal complexity may 𝑝𝑟𝑒𝑑𝑎𝑡𝑒 𝑡ℎ𝑒 𝑒𝑦𝑒 𝑖𝑡𝑠𝑒𝑙𝑓. www.biorxiv.org/content/10.1... 1/n
media.tenor.com
a black and white dog is sitting on a couch with its tongue sticking out .
ALT: a black and white dog is sitting on a couch with its tongue sticking out .
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Muriel Perron @murielperron.bsky.social · 06/09/2025
Fantastic workshop !!!! Thank you again Seth and Michel !!!
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Seth Blackshaw @sethblackshaw.bsky.social · 05/08/2025
Our latest preprint is out, focusing on characterizing the response of Lhx6-positive neurons of the zona incerta (ZI) to naturally-occurring and experimentally-induced changes in the need to sleep, also known as sleep pressure. www.biorxiv.org/content/10.1...
biorxiv.org
Sleep pressure is differentially regulated by molecularly distinct subtypes of Lhx6-positive and Lhx6-negative neurons of the zona incerta
Sleep pressure, the accumulating drive towards sleep during wakefulness, is shaped by Lhx6-positive GABAergic neurons in the zona incerta (ZI). Here, we show that these neurons are broadly activated b...
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Seth Blackshaw @sethblackshaw.bsky.social · 04/07/2025
Now up, positively our lab's last word on Ptbp1. Developmental loss of function Ptbp1 turns out not to regulate neurogenesis or cell fate specification at all, but does alter splicing patterns and slightly accelerates expression of photoreceptor-specific genes./1 www.biorxiv.org/content/10.1...
biorxiv.org
Ptbp1 is not required for retinal neurogenesis and cell fate specification.
The RNA-binding protein Ptbp1 has been proposed as a master regulator of neuronal fate, repressing neurogenesis through its effects on alternative splicing and miRNA maturation. While prior studies us...
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Helena Kilpinen @hkilpinen.bsky.social · 25/06/2025
Job alert ‼️ @thomasdwkim.bsky.social and I are recruiting a postdoc in single-cell genomics via the NORPOD program of the @nordicembl.bsky.social. Collaboration between @fimm-uh.bsky.social and @dandrite.bsky.social on multimodal data integration in neurodevelopment. jobs.helsinki.fi/job/Helsinki...
jobs.helsinki.fi
Postdoctoral Researcher in Single-Cell Genomics through the NORPOD program
Postdoctoral Researcher in Single-Cell Genomics through the NORPOD program
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Seth Blackshaw @sethblackshaw.bsky.social · 19/06/2025
New collaborative study out with Mark Wu’s group identifies a thalamic reuniens-zona incerta circuit as both responsive to induced sleep deprivation and essential for mediating recovery sleep. Further perspective on this work follows./1 www.science.org/doi/epdf/10....
science.org
Sleep need–dependent plasticity of a thalamic circuit promotes homeostatic recovery sleep
Prolonged wakefulness leads to persistent, deep recovery sleep (RS). However, the neuronal circuits that mediate this process remain elusive. From a circuit screen in mice, we identified a group of th...
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Seth Blackshaw @sethblackshaw.bsky.social · 14/06/2025
Our paper on gene regulatory networks controlling hypothalamic and prethalamic development is now out in Cell Reports./1 www.cell.com/cell-reports...
cell.com
Decoding gene networks controlling hypothalamic and prethalamic neuron development
Kim et al. map gene regulatory networks of the developing mouse hypothalamus and prethalamus using single-cell multiomics, identifying regulators of regionalization and neurogenesis. They further show...
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Seth Blackshaw @sethblackshaw.bsky.social · 02/05/2025
Meis1/2 are transcription factors that are predicted to regulate early-stage temporal identity in retina based on single-cell multiomic analysis. We tested whether Meis1/2 were sufficient to confer early temporal identity./1 www.biorxiv.org/content/10.1...
biorxiv.org
Overexpression of Meis factors in late-stage retinal progenitors yields complex effects on temporal patterning and neurogenesis.
The vertebrate retina serves as a model for studying neurogenesis and cell fate specification, with retinal progenitor cells following a tightly regulated temporal sequence to generate distinct cell t...
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Seth Blackshaw @sethblackshaw.bsky.social · 02/05/2025
OK everyone, you know what to do, particularly if you live in a red state with a major medical school. donmoynihan.substack.com/p/the-nih-bu...
donmoynihan.substack.com
The NIH budget is on a fast track to disaster
An NIH insider explains what Republicans are likely to do next, and what we can do
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Seth Blackshaw @sethblackshaw.bsky.social · 29/04/2025
New preprint from former lab member Joe Bedont on Bmal1 in hypothalamus tanycytes. Tanycyte-specific loss of function of Bmal1 inhibits both weight gain on high-fat diet and tanycyte-derived neurogenesis. www.biorxiv.org/content/10.1...
biorxiv.org
Tanycyte Bmal1 sex-specifically regulates weight gain and hypothalamic neurogenesis in female mice
The hypothalamic radial-glia-like tanycyte population plays important and intertwined roles in feeding and metabolism, reproduction, and seasonality. Although these processes are circadian-regulated a...
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Seth Blackshaw @sethblackshaw.bsky.social · 29/04/2025
Our latest manuscript (7 years in the works) tackles the question of how diurnal ground squirrels evolved a cone-dominant retina, in contrast to the ancestral rod-dominant retina retained by virtually all other mammals./1 www.biorxiv.org/content/10.1...
biorxiv.org
Heterochronic transcription factor expression drives cone-dominant retina development in 13-lined ground squirrels.
Evolutionary adaptation to diurnal vision in ground squirrels has led to the development of a cone-dominant retina, in stark contrast to the rod-dominant retinas of most mammals. The molecular mechani...
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Seth Blackshaw @sethblackshaw.bsky.social · 28/04/2025
The final version of our eLife manuscript on viral Oct4-mediated neurogenic reprogramming of retinal Muller glia is now out, with all reviewer comments addressed. elifesciences.org/reviewed-pre...
elifesciences.org
Viral-mediated Oct4 overexpression and inhibition of Notch signaling synergistically induce neurogenic competence in mammalian Müller glia
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Seth Blackshaw @sethblackshaw.bsky.social · 05/04/2025
A second new study describes JACUZI-SD, a new method for efficiently and non-stressfully inducing sleep deprivation in larval zebrafish, which works by delivering randomized water pulses via a custom milli-fluidic device integrated with a 96-well plate. www.biorxiv.org/content/10.1...
biorxiv.org
JACUZI-SD: An automated, high-throughput, minimally stressful approach to sleep depriving larval zebrafish.
While sleep deprivation broadly disrupts health and well-being, the neural and molecular mechanisms that signal increased sleep pressure remain poorly understood. A key obstacle to progress is the fac...
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Seth Blackshaw @sethblackshaw.bsky.social · 05/04/2025
Our latest manuscript on glia-to-neuron conversion in retina is out in @elife.bsky.social. We show that AAV-mediated overexpression of Oct4 induces glia-to-bipolar cell conversion in wildtype retina, and that this is greatly enhanced by loss of function of Rbpj. elifesciences.org/reviewed-pre...
elifesciences.org
Viral-mediated Oct4 overexpression and inhibition of Notch signaling synergistically induce neurogenic competence in mammalian Müller glia
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Bob Johnston @bobbyjeyeguy.bsky.social · 24/03/2025
Check out this tour de force work from @christ3na.bsky.social in my lab! Her studies reveal how developmental timing in the retina is controlled like an hourglass. The progenitor:neuron ratio shifts to control signaling levels and trigger photoreceptor development over time. Check it out!!
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Seth Blackshaw @sethblackshaw.bsky.social · 08/03/2025
Standing up for science with lab members in DC yesterday.
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Catherine Dulac @dulaclab.bsky.social · 26/02/2025
Nice story on fabulous new work from @dingliu.bsky.social in my lab, just out today!...
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Seth Blackshaw @sethblackshaw.bsky.social · 25/02/2025
Our new review article with @michelcayouette.bsky.social is out on temporal patterning and glial reprogramming in adult CNS, and its implications for treating degenerative diseases. All work from our lab discussed here was funded by NIH. authors.elsevier.com/a/1kfup3Q9h2...
authors.elsevier.com
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Seth Blackshaw @sethblackshaw.bsky.social · 20/02/2025
Happy to make our own small contribution to this exciting new study from the Iijima and Sesaki labs on Parkin/PINK1-dependent regulation of mitochondrial fusion. www.nature.com/articles/s41...
nature.com
Dual regulation of mitochondrial fusion by Parkin–PINK1 and OMA1 - Nature
We find that, in mice, although the individual loss of Parkin or OMA1 does not affect mitochondrial integrity, their combined loss results in small body size, low locomotor activity, premature death, ...
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Elisa Zhang, Ph.D. @elisazhang.bsky.social · 16/02/2025
Get ready to #standupforscience in 2.5 weeks!
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Seth Blackshaw @sethblackshaw.bsky.social · 09/02/2025
PA, NC, TN, MO hit very hard proportionally. Impact per capita impact in the last three comparable to California, with PA nearly 40% higher. Contact your Republican senators in these states.
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Seth Blackshaw @sethblackshaw.bsky.social · 09/02/2025
Keep up the pressure. When you’re explaining, you’re losing.
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Seth Blackshaw @sethblackshaw.bsky.social · 09/02/2025
Remind them of this.
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Alt NIH Bluesky 🧪 @altnih4science.bsky.social · 09/02/2025
End game for Vought and the Project 2025 coalition is impoundment to starve universities. They can do a lot from OMB. I think this indirect cost cut was a political error for them because it’s mobilizing people from many states. I think they saw it as a wedge issue against Harvard but miscalculated
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Seth Blackshaw @sethblackshaw.bsky.social · 09/02/2025
These actions are highly unpopular, which is why they are using these illegal means to implement them. Simmering in their social media cauldrons for so long, they have been convinced that the wind is at their back, and they have broad support. We need to make it crystal clear that they do not.
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Seth Blackshaw @sethblackshaw.bsky.social · 08/02/2025
Some numbers here.
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Jeremy Berg @jeremymberg.bsky.social · 08/02/2025
The NIH Notice about the new indirect cost rate "plan"
media.tenor.com
a cartoon of homer simpson holding a card
ALT: a cartoon of homer simpson holding a card
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Seth Blackshaw @sethblackshaw.bsky.social · 08/02/2025
This is the way. Republicans can't pass either a budget or a debt limit increase on their own. Ending this nonsense immediately is the price of cooperation. www.nytimes.com/2025/02/07/u...
nytimes.com
As Trump and Musk Upend Washington, Congressional Phones Can’t Keep Up
In the three weeks since President Trump took office and gave Elon Musk free rein inside the federal government, millions of calls have poured in to members of Congress, jamming the system.
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