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Casey Gifford

@caseygifford

Assistant Professor @ Stanford

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09.11.2024
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Latest posts by Casey Gifford @caseygifford

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Editing stem cell genomes at scale to measure variant effects in diverse cell and genetic contexts Multiplexed assays of variant effect (MAVEs) systematically measure variant function but have been limited to cancer cell lines rather than disease-relevant cell types. We developed saturation genome ...

The effects of genetic variants primarily occur in differentiated cells meaning we need to access these cell types to measure variant effects for most disease genes. We developed saturation genome editing in stem cells (iPSC-SGE) to enable phenotyping in diverse genetic and cell contexts at scale!

22.11.2025 01:48 πŸ‘ 12 πŸ” 7 πŸ’¬ 1 πŸ“Œ 3

And, HUGE thanks to #ultima_genomics for making it possible! We can’t wait to integrate this data with fiber-seq and WGS to better understand why kids are born with heart defects, and actually find ways to prevent and/or treat it β€οΈβ€πŸ©Ή

01.07.2025 04:34 πŸ‘ 1 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0
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01.07.2025 04:34 πŸ‘ 1 πŸ” 0 πŸ’¬ 1 πŸ“Œ 0

About 7 weeks ago, I told my lab that #ultima_genomics was willing to sequence cardiac organoid multiomes delivered by June 30. Josh, Megha and Lucy said… GAME.ON. And well, today they delivered 59 from various hiPSC lines, conditions and time points πŸ’ͺπŸ₯³πŸ§¬ So proud of them for stepping up!

01.07.2025 04:34 πŸ‘ 2 πŸ” 0 πŸ’¬ 1 πŸ“Œ 0
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Frost: Tonight the people stealing are not folks with tattoos and hoodies but people wearing suits and ties and congressional pins sitting in the capitol now, not in some alley wrapped in darkness but the United States congress wrapped in the flag. It is disgusting and we will never forget this.

22.05.2025 04:05 πŸ‘ 32400 πŸ” 9949 πŸ’¬ 584 πŸ“Œ 502
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Good cover @economist.com

22.05.2025 15:41 πŸ‘ 873 πŸ” 292 πŸ’¬ 13 πŸ“Œ 11

All NSF GRFPs to students choosing to attend Harvard in the Fall were just terminated

22.05.2025 19:38 πŸ‘ 709 πŸ” 402 πŸ’¬ 34 πŸ“Œ 81

Bullying students and schools to provoke fear and silence dissent is how we trade democracy and freedom for authoritarianism. This will affect nearly a third of Harvard's students. We cannot be silent.

22.05.2025 20:17 πŸ‘ 506 πŸ” 124 πŸ’¬ 15 πŸ“Œ 3

NSF GRFPs terminated for those in graduate school and already attending Harvard, too.

22.05.2025 20:31 πŸ‘ 91 πŸ” 59 πŸ’¬ 5 πŸ“Œ 9
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Magnifying the Beauty of Science! Enter your best cell image by April 16th.

Vote for Megha Agarwal’s cardiac organoid β€˜STEMCELLfie’ πŸ”¬πŸ§«β€οΈβ­οΈπŸ€© www.stemcell.com/stemcellfie

28.04.2025 18:42 πŸ‘ 3 πŸ” 0 πŸ’¬ 0 πŸ“Œ 0
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Fearing Trump cuts, California Democrat proposes creating state’s own NIH The ambitious state lawmaker argues moves by Elon Musk and Robert F. Kennedy Jr. show the Golden State must β€œstep up” as a global leader.

Go California! Please write to your representatives in the California Senate and ask them to support Mr. Scott Wiener's Bill.
www.politico.com/news/2025/03...

27.03.2025 23:21 πŸ‘ 52 πŸ” 16 πŸ’¬ 3 πŸ“Œ 4
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Look what's happening at the French Embassy in Washington DC.

04.03.2025 21:05 πŸ‘ 66209 πŸ” 10385 πŸ’¬ 645 πŸ“Œ 415
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NEW: Senator Marshall (R-KS) RUNS AWAY, fleeing his own town hall after being asked about DOGE firing Veterans. MAKE HIM GO VIRAL.

01.03.2025 18:21 πŸ‘ 94767 πŸ” 41115 πŸ’¬ 5817 πŸ“Œ 4845
Rare Disease Day 2025 – Raising awareness for people living with rare diseases and their families worldwide.

Today is Rare Disease Day, and a great reminder of the importance of NIH and science funding in driving hope πŸ§¬β¬‡οΈ

www.rarediseaseday.org

01.03.2025 03:56 πŸ‘ 148 πŸ” 46 πŸ’¬ 2 πŸ“Œ 5
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Editorial: A president just disrespected America in the Oval Office. It wasn’t Zelensky It’s time to say it plainly. America’s leadership has switched sides in the war. The American people have not, and they should speak up. In the past several weeks, the U.S. leadership has demonstrate...

NEW: A searing editorial in the The Kyiv Independent.

β€œIt’s time to say it plainly. America’s leadership has switched sides in the war. The American people have not, and they should speak up.

β€œA president just disrespected America in the Oval Office. It wasn’t Zelensky.”

@kyivindependent.com

28.02.2025 22:45 πŸ‘ 67657 πŸ” 19223 πŸ’¬ 1255 πŸ“Œ 1039
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Why do so many retirement-age scientists keep working? Survey reveals a desire to hold onto their professional identity keeps Ph.D.s working beyond their 60s

Most #PhD scientists in the United States stay in the labor force notably longer than the average personβ€”into their late 60s and in some cases beyondβ€”according to new data from the National Science Foundation. scim.ag/4knpeWn

28.02.2025 14:31 πŸ‘ 375 πŸ” 67 πŸ’¬ 17 πŸ“Œ 9
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U.S. early-career researchers struggling amid chaos Uncertain funding, government firings, and distressed universities hit vulnerable groups especially hard

Graduating during the pandemic slowed down my process and is part of why I did two postdocs. Now as a first year faculty, all the federal grants are frozen. I love the work I do but this has all of us questioning how much www.science.org/content/arti...

24.02.2025 23:26 πŸ‘ 2722 πŸ” 542 πŸ’¬ 69 πŸ“Œ 23
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Exclusive: NIH appears to archive policy requiring female animals in studies Such a shift would β€œput us back in the dark ages in terms of our science,” says neuroscientist Anne Murphy, who helped to formulate the original policy.

www.thetransmitter.org/policy/exclu...

25.02.2025 01:21 πŸ‘ 26 πŸ” 16 πŸ’¬ 1 πŸ“Œ 4
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Trump Tracker: Firings, lawsuits, and U.S. science in chaos Follow President Donald Trump’s impact on U.S. research and science globally

A freeze on meetings of expert panels that peer review grant proposals at the National Institutes of Health is kicking in this week.

Follow Science’s coverage of President Donald Trump’s impact on U.S. research and science globally. ⬇️ scim.ag/40XtSSi

19.02.2025 18:18 πŸ‘ 111 πŸ” 67 πŸ’¬ 6 πŸ“Œ 4
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Welcome to the Bluesky account for Stand Up for Science 2025!

Keep an eye on this space for updates, event information, and ways to get involved. We can't wait to see everyone #standupforscience2025 on March 7th, both in DC and locations nationwide!

#scienceforall #sciencenotsilence

12.02.2025 17:04 πŸ‘ 11494 πŸ” 5433 πŸ’¬ 291 πŸ“Œ 670
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#WomeninSTEM accelerate science and make our work possible. Today, we join other science organizations around the world by recognizing the International Day of Women and Girls in Science. #WomenInScienceDay

11.02.2025 21:03 πŸ‘ 44 πŸ” 11 πŸ’¬ 0 πŸ“Œ 1

Just got the dreaded email. University of Iowa is halting all NIH grant submissions.

Losing a generation of scientists here will send the state backwards. What a travesty.

10.02.2025 22:14 πŸ‘ 7572 πŸ” 2120 πŸ’¬ 63 πŸ“Œ 51
WORKING LIFE I was worried I didn't belong in scienceβ€”until I discovered many researchers feel the same way

WORKING LIFE I was worried I didn't belong in scienceβ€”until I discovered many researchers feel the same way

"Maybe impostor syndrome wasn’t a sign of failure, but a sign of growth."

This week's #ScienceWorkingLife. https://scim.ag/3QbA5oF

10.02.2025 15:07 πŸ‘ 109 πŸ” 20 πŸ’¬ 4 πŸ“Œ 0
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Trump Killed a Major Report on Nature. They’re Trying to Publish It Anyway. The first full draft of the assessment, on the state of America’s land, water and wildlife, was weeks from completion. The project leader called the study β€œtoo important to die.”

President Trump ended a first-of-its-kind assessment of land, water and wildlife across the U.S. that its leader called "too important to die," weeks before the study was set to be completed.

10.02.2025 15:56 πŸ‘ 1202 πŸ” 404 πŸ’¬ 46 πŸ“Œ 33
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How a Canadian scientist and a venomous lizard helped pave the way for Ozempic - National | Globalnews.ca In 1984, Dr. Daniel Drucker, an endocrinologist from the University of Toronto, discovered a hormone that helped pave the way for popular diabetes drugs such as Ozempic.

This is the most relevant article to NIH and research cuts I’ve seen.

Imagine if this was today , how many people would be saying β€œWhy are we studying Gila Monsters and their impact on diabetes ? That’s wasted money !”

globalnews.ca/news/9793403...

09.02.2025 21:58 πŸ‘ 48792 πŸ” 12464 πŸ’¬ 1132 πŸ“Œ 436
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A genome-wide atlas of human cell morphology - Nature Methods An optical pooled cell profiling platform (PERISCOPE) based on Cell Painting and optical sequencing of molecular barcodes was used to develop the first unbiased genome-wide morphology-based perturbati...

Our paper β€œA genome-wide atlas of human cell morphology” is finally out today in @naturemethods.bsky.social ! www.nature.com/articles/s41...

(I tweeted about our preprint in 2023 over at the bad place, but deactivated my account, so here we go again!)

27.01.2025 18:23 πŸ‘ 138 πŸ” 39 πŸ’¬ 2 πŸ“Œ 2
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Massively parallel characterization of transcriptional regulatory elements - Nature Lentivirus-based reporter assays for 680,000 regulatory sequences from three cell lines coupled to machine-learning models lead to insights into the grammar of cis-regulatory elements.

Massively parallel reporter assays (MPRAs) testing >680,000 sequences combined with machine learning to improve regulatory element & variant effect prediction. Amazing work by @vagar.bsky.social, Fumitaka Inoue, @jshendure.bsky.social and many others as part of ENCODE.
www.nature.com/articles/s41...

15.01.2025 17:05 πŸ‘ 95 πŸ” 40 πŸ’¬ 1 πŸ“Œ 2
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GREGoR: Accelerating Genomics for Rare Diseases Rare diseases are collectively common, affecting approximately one in twenty individuals worldwide. In recent years, rapid progress has been made in rare disease diagnostics due to advances in DNA seq...

🚨 Excited to announce the Marker paper for the GREGoR Consortium! arxiv.org/abs/2412.14338

Accelerating #RareDisease diagnostics with cutting-edge #Genomics and global data sharing of omics and deep phenotyping from ~7500 individuals on NHGRI AnVIL and much more to come! 🧬

20.12.2024 01:49 πŸ‘ 17 πŸ” 12 πŸ’¬ 1 πŸ“Œ 1
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I joined 75+ @nobelprize.bsky.social laureates urging US Senators to oppose RFK Jr.'s confirmation as DHHS Secretary. If you’re in a state with GOP senators, PLEASE reach out to them! I’d deeply appreciate it if you amplified this post! πŸ™
www.nytimes.com/2024/12/09/h...

09.12.2024 23:19 πŸ‘ 505 πŸ” 240 πŸ’¬ 14 πŸ“Œ 8

Introducing scE2G: a new model to link enhancers to target genes using single-cell data.

Excited that scE2G will enable building enhancer maps in hundreds of cell types in the human body!

Wonderful collaboration with @randersson.bsky.social @613weilin.bsky.social @mayayayas.bsky.social

ThreadπŸ‘‡

25.11.2024 23:22 πŸ‘ 29 πŸ” 8 πŸ’¬ 0 πŸ“Œ 0