Sign in

Xiaojing Gao

@synbiogaolab.bsky.social
584 followers 236 following 39 posts

Assistant Professor @ Stanford ChemE synthetic biology, biomolecular engineering gaolab.blog

PostsRepliesMedia
Xiaojing Gao @synbiogaolab.bsky.social · 05/08/2026
Heading to mSBW? Check out our work brought to you by Connor (Poster 47, genetically encoded urinary reporter to noninvasively monitor live molecular events), JS (Poster 46, efficient biophysical design of orthogonal DNA duplex libraries), and Meng (talk, ablating cancer using RADAR).
000
Xiaojing Gao @synbiogaolab.bsky.social · 29/07/2026
Please RT: We're hiring! Computational postdoc for foundation model and sequence-structure-function studies of intrinsic disordered proteins through a consortium and unique large datasets. Ideal candidates have led ML/AI projects in protein design/analysis.
233
Reposted by Xiaojing Gao
Nature Biotechnology @natbiotech.nature.com · 23/06/2026
Efficient generation of epitope-targeted antibodies with Germinal - @brianhie.bsky.social @synbiogaolab.bsky.social @stanford.edu @arcinstitute.org www.nature.com/articles/s41...
nature.com
Efficient generation of epitope-targeted antibodies with Germinal - Nature Biotechnology
Germinal achieves epitope-targeted, de novo complementarity-determining region design with high experimental success rates.
0156
Xiaojing Gao @synbiogaolab.bsky.social · 18/04/2026
Don't feel bad about missing the mSBW abstract deadline. We have extended it! We also keep the registration fee affordable ($150 for students) so that mammalian synbio-curious trainees can check it out, especially if you are in the Atlanta area. Meeting link below:
111
Xiaojing Gao @synbiogaolab.bsky.social · 18/04/2026
A neat amplification system to improve the limited sensitivity/dynamic range of RADAR pubs.acs.org/doi/10.1021/...
pubs.acs.org
Establishing an RNA Sensor with High Sensitivity and Dynamic Range Utilizing a Signal Amplifier Platform
Precise control of gene expression in a cell-state-specific manner is essential for effective therapeutic interventions in complex and dynamic disease microenvironments. Traditional targeting strategi...
040
Xiaojing Gao @synbiogaolab.bsky.social · 15/04/2026
We just updated our Germinal preprint for de novo antibody-like binder design! Featuring additional scFv designs, extensive experimental validation of epitope specificity and polyreactivity, and CryoEM structure courtesy of Jim Zhang and Bing Rao from Feng Liang's lab.
021
Reposted by Xiaojing Gao
Harris Wang @harriswang.bsky.social · 05/03/2026
SEED 2026 Abstract due in 3 days! We've got an excellent line up of keynotes & invited speakers. Join us to present your work & hear the latest SynBio breakthroughs. A major theme this year is AI+Bio! 🧬🔬🤖💻🦠 synbioconference.org/2026
031
Reposted by Xiaojing Gao
Steven Banik @stevenbanik.bsky.social · 03/02/2026
Excited to share our latest preprint on work led by postdoc Robert Lusi (@rflusi.bsky.social)! Introducing ALTER (AGO-Led Targeted Editing of RNA) for non-downregulatory RNA manipulation by repurposing hAGO2, non-immunogenic and capitalizing on evolution. www.biorxiv.org/content/10.6...
biorxiv.org
1156
Reposted by Xiaojing Gao
Francesca Ceroni @ceronifranci.bsky.social · 17/12/2025
So you think your mammalian plasmids have nothing to fear from cloning and propagation in E.coli? Quantitative profiling of millions of nucleotides by Tom Copeman will prove you wrong! Supervised with the amazing @proftomellis.bsky.social and AZ, now on BioRxiv: doi.org/10.64898/202...
doi.org
Quantitative profiling of millions of nucleotides reveals sequence-encoded interactions that govern plasmid propagation
Plasmids are central to modern biotechnology, especially therapeutic development, yet their propagation in Escherichia coli remains difficult to predict. Although expression-induced burden is well und...
1118
Reposted by Xiaojing Gao
Scott Coyle @cellraiser.bsky.social · 17/12/2025
New in ACS SynBio: led by Dennis Bolshakov, we used the awesome power of yeast to define how expression levels, noise, and sequence program the dynamics of synthetic protein waves, allowing us to genetically encode new cellular timescales stable over generations! pubs.acs.org/doi/full/10....
22711
Xiaojing Gao @synbiogaolab.bsky.social · 13/11/2025
Have you ever wondered what it would've been like to live in a different kind of society? After a record number of rejections, I'm self-archiving my first attempt at... flash fiction, featuring "Hemingway-esque economy" and "Ishiguro's measured revelation" (if you ask Claude).
120
Reposted by Xiaojing Gao
Drug Monkey @drugmonkey.bsky.social · 27/09/2025
Whether you think limiting student visas to 4 years is a good or bad thing, please comment. Be heard.
31617
Reposted by Xiaojing Gao
Lindsay Schwarz @lindsayschwarz.bsky.social · 24/09/2025
With 2 postdocs moving on to faculty positions🥳, we're looking to hire someone new. If you're interested in norepinephrine and neural circuits, please apply! tinyurl.com/42bfe24k
tinyurl.com
Postdoctoral Research Associate - Developmental Neurobiology
A postdoctoral research associate position is available in the laboratory of Dr. Lindsay Schwarz in the Department of Developmental Neurobiology at St. Jude Children’s Research Hospital. The Schwarz l...
44729
Xiaojing Gao @synbiogaolab.bsky.social · 24/09/2025
Having often dealt with the frustration of binder-limited projects, we sought a more accessible source for nanobodies than yeast display or llama. Here we introduce Germinal, computationally designing antibody-like binders with such a hit rate that only tens need to be screened for each target.
173
Xiaojing Gao @synbiogaolab.bsky.social · 19/09/2025
We previously built programmable RNA sensors based on editing by housekeeping ADAR enzymes. But they can't sense arbitrary sequences due to design constraints (analogous to PAM for CRISPR). With our new "modulADAR", we overcome that constraint by leveraging ADAR's modularity.
150
Reposted by Xiaojing Gao
Amy Weeks @amyweeks.bsky.social · 18/07/2025
Excited to share our latest: we engineered the reactivity of a bacterial E1-like enzyme for ATP-driven modification of C termini. Our tool mimics the logic of peptide bond formation in biology for precision modification of proteins in vitro. 🧪https://rdcu.be/ewN7C
rdcu.be
Engineered reactivity of a bacterial E1-like enzyme enables ATP-driven modification of protein and peptide C termini
Nature Chemistry - In living systems, ATP provides an energetic driving force for protein synthesis and modification. Now, an engineered enzymatic tool has been developed for high-yield, ATP-driven...
49741
Xiaojing Gao @synbiogaolab.bsky.social · 17/07/2025
Have you always wanted to take a protein from its native context and make it work elsewhere? Our novel sampler computationally “cytosolize” a secreted enzyme while maintaining its structure, generalizable to other multi-objective guided generation tasks www.biorxiv.org/content/10.1...
biorxiv.org
ProVADA: Generation of Subcellular Protein Variants via Ensemble-Guided Test-Time Steering
Engineering protein variants to function in exogenous environments remains a significant challenge due to the complexity of sequence and fitness landscapes. Experimental strategies often require exten...
140
Xiaojing Gao @synbiogaolab.bsky.social · 03/06/2025
The machine-guided humanization paper is out after peer review! doi.org/10.1016/j.ce... Key contributions from current and previous international students on visas, representing 5+ countries.
doi.org
Redirecting
062
Reposted by Xiaojing Gao
Matt Bogyo @mbogyo.bsky.social · 31/05/2025
Our latest work developing AND-gate probes for imaging caspase-1 mediated inflammation is out. Very productive collaboration with Merck & Co. in South San Francisco. #chembio. www.biorxiv.org/content/10.1...
biorxiv.org
A caspase-1-cathepsin AND-gate probe for selective imaging of inflammasome activation
Caspase-1 is a key mediator of the inflammasome pathway, which is associated with several inflammatory disorders including obesity, diabetes mellitus (DM), cardiovascular diseases (CVDs), cancers and ...
0181
Reposted by Xiaojing Gao
Flora Rutaganira @frutag33.bsky.social · 21/04/2025
Hello Community! Are you a postdoc/grad student preparing to launch a faculty search? Do you have a track record of excellence in research, leadership, mentorship & community engagement? Apply to the 2025 Next Generation Faculty Symposium: www.berkeleystanfordnextgensymposium.com! Pls repost! (1/3)
Flyer for the 2025 Next Generation Faculty Symposium (including QR code in top right corner). This symposium highlights the work of exceptional early-career scientists in the broad field of quantitative biological and biomedical sciences, with a track record of excellence in research, leadership, mentorship, and community engagement. These early career scientists are preparing to launch a faculty search. Applications are due May 30th, 2025.
29184
Xiaojing Gao @synbiogaolab.bsky.social · 03/04/2025
Grateful for the recognition and for my team's dedication. When I wrote it in Oct, I didn't anticipate that the title would feel defiant. The original draft even had a now quaint reference to "the comparative comfort of the ivory tower", which was wisely removed.
351
Xiaojing Gao @synbiogaolab.bsky.social · 28/03/2025
LIDAR is out! rdcu.be/efugD We are one baby step closer to making it useful for therapeutics. NIH high-risk high-reward program provides key support.
rdcu.be
Post-transcriptional modular synthetic receptors
Nature Chemical Biology - Zhang, Mille-Fragoso and colleagues developed a synthetic receptor platform named LIDAR (Ligand-Induced Dimerization-Activating RNA editing), which enables...
0194
Reposted by Xiaojing Gao
Carolyn Bertozzi @carolynbertozzi.bskyverified.social · 09/03/2025
If you have time in your life to read only one of @jeremymberg.bsky.social’s bluetorials, please read this one
215341
Xiaojing Gao @synbiogaolab.bsky.social · 01/03/2025
So we beat on. Gene/cell therapies would benefit many patients, but often use proteins that could be recognized as non-self by our immune system and cause problems. We combine algorithms to build proteins that are therapeutically relevant and can masquerade as our own parts doi.org/10.1101/2025...
doi.org
Machine-Guided Dual-Objective Protein Engineering for Deimmunization and Therapeutic Functions
Cell and gene therapies often rely on the expression of exogenous proteins derived from nonhuman organisms. An emerging consensus is to reduce the potential immunogenicity of such therapies by instead...
1102
Reposted by Xiaojing Gao
CantlonLab @cantlonlab.bsky.social · 18/02/2025
Join us! Science Homecoming helps scientists reconnect with communities by writing about the importance of science funding in their hometown newspapers. We’ve mapped every small newspaper in the U.S. and provide resources to get you started. Help science get back home 🧪🔬🧬 🏠 sciencehomecoming.com
sciencehomecoming.com
Science Homecoming
43905682
Reposted by Xiaojing Gao
Sri Kosuri @srikosuri.bsky.social · 08/02/2025
It’s been a tough few weeks. My 10yo daughter was diagnosed with a very rare, aggressive cancer called interdigitating dendritic cell sarcoma (IDCS). I’m reaching out to identify clinicians/patients who have encountered pediatric IDCS or other (non-LCH) dendritic or histiocytic sarcomas cases.
841009846
Reposted by Xiaojing Gao
Jeremy Berg @jeremymberg.bsky.social · 23/01/2025
Your biggest power is as a constituent who cares about the issue and may be directly or indirectly affected by them My format is generally: NIH is important for the nation, both in terms of health knowledge and economics/competitiveness 1/n
24633
Reposted by Xiaojing Gao
Laura M. K. Dassama @lmkdassama.bsky.social · 18/01/2025
Excited to share this beast of a review on the potential of protein-based degraders from trainees who are all not on the Sky! Herein we cover choice of binders, selection strategies, E3 ligases, and DELIVERY! pubs.acs.org/doi/10.1021/...
pubs.acs.org
Protein-Based Degraders: From Chemical Biology Tools to Neo-Therapeutics
The nascent field of targeted protein degradation (TPD) could revolutionize biomedicine due to the ability of degrader molecules to selectively modulate disease-relevant proteins. A key limitation to ...
04010
Xiaojing Gao @synbiogaolab.bsky.social · 15/01/2025
Proteases might serve as versatile control knobs for gene and cell therapies, but there looms the risk of immunogenicity as we and others have been using viral proteases. We now report a control system based on a an engineered human protease and its clinically approved inhibitor. rdcu.be/d6kVt
rdcu.be
Orthogonalized human protease control of secreted signals
Nature Chemical Biology - Engineering of a human-derived protease controlled exogenously by its FDA-approved inhibitor enables control over cytokine activity in cell-based therapies with reduced...
2125
Reposted by Xiaojing Gao
Dr. Karmella Haynes @drkhaynes.bsky.social · 14/01/2025
If you’re feeling too boxed in focusing on one protein, take a journey across the evolutionary tree of life. It’s full of cool surprises. A spider ortholog of my favorite protein sequence, the chromodomain, shares a feature with an enhanced version we engineered. www.biorxiv.org/content/10.1...
biorxiv.org
An engineered chromatin protein with enhanced preferential binding of H3K27me3 over H3K9me3
The human genome is organized within the nucleus as chromatin, which is largely comprised of histone proteins that assemble on DNA into nucleosome complexes. Histone post-translational modifications (...
0103
Reposted by Xiaojing Gao
Bryan Dickinson @chembiobryan.bsky.social · 07/01/2025
Super excited to finally share PANCS-Binders: our group's decade-long quest to accelerate protein binder discovery. TLDR: PANCS-binders is fast (2 days), cheap (pennies), has extremely high fidelity (low false positive and negatives), and high-throughput. 1/n
49436
Reposted by Xiaojing Gao
Gene Chong @chongg.bsky.social · 06/01/2025
I'm happy to see this paper I handled finally out! -- Directed evolution in mammalian cells using an orthogonal alphaviral RNA replication system with antiviral-induced mutagenesis #ChemBio #synbio www.nature.com/articles/s41...
nature.com
Orthogonal RNA replication enables directed evolution and Darwinian adaptation in mammalian cells - Nature Chemical Biology
An orthogonal alphaviral RNA replication system with chemically inducible control of RNA mutagenesis enables RNA-based directed evolution in mammalian cells.
02711
Reposted by Xiaojing Gao
Anne S. Meyer @meyerroc.bsky.social · 17/12/2024
Thank you to @urochester.bsky.social for writing this nice piece about our new PNAS article, which explains how we engineered bacteria to encapsulate themselves in glass, allowing them to focus light like microlenses! @pnas.org www.rochester.edu/newscenter/w...
rochester.edu
Can sea sponge biology transform imaging technology?
University of Rochester researchers draw inspiration from nature to create tiny, powerful microlenses for advanced image sensors.
1176
Reposted by Xiaojing Gao
Jerzy Szablowski @jerzyszablowski.bsky.social · 12/12/2024
qPCR can measure expression of virtually any gene... in homogenized tissues. Here, we show an "in-vivo qPCR" equivalent, where we measure a sequence-specific transcript with synthetic serum markers and enzyme-based signal amplification. www.biorxiv.org/content/10.1...
Schematic explaining In vivo tracking of active transcription. Injection of gene therapy is followed by measurement of the transcripts with RNA sensors, which produce a synthetic serum marker called RMA.
084
Reposted by Xiaojing Gao
Possu Huang Lab @possuhuanglab.bsky.social · 17/12/2024
1/ In two back-to-back papers, we present our de novo TRACeR platform for targeting MHC-I and MHC-II antigens TRACeR for MHC-I: go.nature.com/4gcLzn5 TRACeR for MHC-II: go.nature.com/4gj5OQk
29129
Xiaojing Gao @synbiogaolab.bsky.social · 15/12/2024
Kudos to the attendee who called out "cultural generalization". I admire her courage and composure. x.com/xwang_lk/sta...
x.com
x.com
020
Reposted by Xiaojing Gao
Leonardo Morsut @leonardomorsut.bsky.social · 13/12/2024
In our preprint we show how one can use synthetic organizers to control patterning of nephrons in kidney organoids. shorturl.at/ZXJuR Morsut + Lindstrom Labs led by Fokion Glykofrydis shorturl.at/CScsg and Connor Fausto shorturl.at/SBJKw in our first bluesky original post!
media.tenor.com
a colorful heart with a blue butterfly on it
ALT: a colorful heart with a blue butterfly on it
121
Reposted by Xiaojing Gao
Michael Fischbach @mfgrp.bsky.social · 11/12/2024
Today we report that an engineered skin bacterium, swabbed gently on the head of a mouse, can unleash a potent antibody response against a pathogen. Could lead to topical vaccines that are applied in a cream. @djenetbousbaine.bsky.social led the charge... @natureportfolio.bsky.social 1/55
23693294
Reposted by Xiaojing Gao
Alice Ting @aliceyting.bsky.social · 04/12/2024
Could one envision a synthetic receptor technology that is fully programmable, able to detect diverse extracellular antigens – both soluble and cell-attached – and convert that recognition into a wide range of intracellular responses, from gene expression and real-time fluorescence to modulation..
33434138
Reposted by Xiaojing Gao
John Ngo @johntngo.bsky.social · 30/11/2024
We designed MS2 and PP7 binding coat proteins that are degraded in cells except when bound by their hairpin RNAs. You can check out our pre-print here: tinyurl.com/27p7hyt9, and listen to a Google AI-generated podcast on it here: notebooklm.google.com/notebook/d71...
511943
Reposted by Xiaojing Gao
Junyue Cao @junyuecao.bsky.social · 29/11/2024
Excited to share our work @science.org. led by our incredible @tommyz626.bsky.social at @rockefelleruniv.bsky.social! By profiling 21 million single cells across life stages, we reveal aging as distinct, development-like transitions, with dramatic cell population changes in specific time windows!
tinyurl.com
A panoramic view of cell population dynamics in mammalian aging
To elucidate aging-associated cellular population dynamics, we present PanSci, a single-cell transcriptome atlas profiling over 20 million cells from 623 mouse tissues across different life stages, se...
1219577
Reposted by Xiaojing Gao
Rongxin Fang, Ph.D. @r3fang.bsky.social · 25/11/2024
I will be starting my lab at Stanford in 2025. We are looking for talented postdocs / grad students to join us to develop single cell sequencing, spatial genomics, machine learning, functional genomics, live cell imaging tools to understand the cell communication across space and time. Please RT!Thx
031
Reposted by Xiaojing Gao
Bryan Dickinson @chembiobryan.bsky.social · 25/11/2024
An update on our engineered PPI prediction challenge originally posted on the other platform... www.dickinsonlab.uchicago.edu/ppi-challenge We got many submissions. Interestingly, most approaches were able to get ~25% accurate (meaning the #1 predicted interaction was the real one) 1/n
dickinsonlab.uchicago.edu
PPI Challenge 1 | dickinson-group
2317
Reposted by Xiaojing Gao
Albert Blanch-Asensio @ablanchasensio.bsky.social · 20/11/2024
Please share! Here is a starter pack dedicated to Mammalian SynBio! It is still incomplete so if you would like to be added/removed please let me know! go.bsky.app/SsxHKoV
63016
Reposted by Xiaojing Gao
Tara Deans @genegirl007.bsky.social · 25/11/2024
Here's a great opportunity for undergrads to apply for a summer internship at the NIH! Applications are due Jan. 8th. Follow link for more details and to apply: www.nibib.nih.gov/labs-at-nibi...
nibib.nih.gov
Biomedical Engineering Summer Internship Program (BESIP) | National Institute of Biomedical Imaging and BioengineeringLock
The NIBIB-sponsored Biomedical Engineering Summer Internship Program (BESIP) is an in-person, 10-week program for undergraduate students who wish to engage in cutting-edge biomedical engineering resea...
01614
Xiaojing Gao @synbiogaolab.bsky.social · 24/11/2024
Hi bskyers (is that the right word?)! Though we don't have a lot of new contents to contribute yet, we did just update our preprint on the modular post-transcriptional "LIDAR" receptors doi.org/10.1101/2024....
130
Xiaojing Gao @synbiogaolab.bsky.social · 23/11/2024
Exactly what I was looking for. Thank you, Calin!
010