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Zikang (Dennis) Huang

@dennishuang.bsky.social
331 followers 603 following 86 posts

PhD student at Bugaj Lab UPenn | synbio | protein engineering | optogenetics | thermogenetics | systems bio | love weird dynamics, information flow, networks | BcLOV4 renovator | looking for postdoc positions

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Zikang (Dennis) Huang @dennishuang.bsky.social · 26/09/2026
I’m happy to announce that I will be defending on Oct 26th at 9a EST! Title: Mining, understanding, and engineering natural protein receptors of light and temperature for dynamic signal integration. Pls DM me for address and zoom if you are interested!
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Zikang (Dennis) Huang @dennishuang.bsky.social · 27/08/2026
www.biorxiv.org/content/10.6... Nice work tracing scRNA and Protein changes questioning our view of central dogma: do RNAs always lead the dynamic changes in proteins abundance?
biorxiv.org
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Lukasz Bugaj @bugajlab.bsky.social · 21/07/2026
A bit late but…Tenured! Immense gratitude for those who got us here. Firstly the students/postdocs (too many to list!) who took a chance on an unproven lab and were unafraid to pursue some strange new ideas. I couldn't have predicted our path, and I couldn’t be more excited for what's next.
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Adrian Woolfson @adrianwoolfson.bsky.social · 06/08/2026
share.google/HyJKOgEByxOd...
share.google
AI-designed viral genomes
The generation of functional viral genomes has urgent biosafety and biosecurity implications
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Reposted by Zikang (Dennis) Huang
Beatrice Ramm @beatriceramm.bsky.social · 30/07/2026
A minimal lipid kinase/phosphatase system, two effector proteins from Legionella pneumophila, self-organizes together with its lipid substrates (PI/PI3P) into dynamic patterns on membranes. Check out our preprint: www.biorxiv.org/content/10.6...
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Zikang (Dennis) Huang @dennishuang.bsky.social · 31/07/2026
Congrats on the beautiful work and great luck with your own lab!
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Nature @nature.com · 29/07/2026
Obituary: Susumu Tonegawa (1939-2026) Japan’s first Nobel prizewinner in physiology or medicine go.nature.com/4wty0Yy
go.nature.com
Obituary: Susumu Tonegawa, Japan’s first Nobel prizewinner in physiology or medicine
Fearless molecular biologist who revealed the workings of antibodies and memories.
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Cees Dekker @ceesdekker.bsky.social · 22/07/2026
We built a a self-dividing synthetic cell ! Check out this #CDlab preprint on BioRxiv: www.biorxiv.org/content/10.6... Great work by 1st author Charu Sharma who encoded dynaminA in a genome and expressed that in liposomes that then divide into daughter cells! Collaboration with Koenderink lab!
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jared toettcher @toettch.bsky.social · 24/07/2026
New Toettchlab paper alert! Harrison Oatman just published his beautiful work combining software design for "smart" microscopy+optogenetics and some really beautiful work understanding EGFR-driven collective cell migration. www.cell.com/cell-systems...
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Carl Zimmer @carlzimmer.com · 22/07/2026
Did Thoreau encounter contagious cancer? A new study finds transmissible tumors in catfish--and raises questions about whether they could arise in humans someday. Gift link: nyti.ms/4whfi6v
nyti.ms
Deep in This Lake, a Contagious Cancer Is Spreading (Gift Article)
Transmissible tumors have been reported in a handful of animal species, but never before among fish. Is it possible in humans?
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Zikang (Dennis) Huang @dennishuang.bsky.social · 21/07/2026
Impressive closed loop control of optogenetics from the Toettcher lab. Crazy video on flipping cell migration by changing speed of egfr activation. These automated systems will generate more data driven hypotheses in the future. Congrats! www.cell.com/cell-systems...
cell.com
An optogenetic smart microscopy platform reveals signaling dynamics-dependent control over collective cell migration
Oatman et al. introduce PyCLM, a Python suite for closed-loop optogenetic experiments combining real-time biosensor measurement and segmentation of thousands of cells. The method is applied to epithel...
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Zikang (Dennis) Huang @dennishuang.bsky.social · 07/07/2026
SpudCell - a minimal synthetic cell. To me it lies between virus and modern cells, further blurring the boundary of living and non-living. What’s the upper limit of supply from environment for living organisms? Are ribosomes too much to ask? www.biorxiv.org/content/10.6...
biorxiv.org
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Zikang (Dennis) Huang @dennishuang.bsky.social · 21/06/2026
Wanna know more about a photoreceptor that encodes a signal adaptation circuit in a single protein, its evolution, and how we engineer it into different info processing modes? Check out poster #26 (and flash talk!) on Tuesday at FASEB signaling!
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Zikang (Dennis) Huang @dennishuang.bsky.social · 19/06/2026
More than just on/off state! What if we can install a timer inside of CAR that has genetically encodable optimal off kinetics instead of depending on I endogenous processes.
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Nature @nature.com · 15/06/2026
Nature research paper: Gene ancestries reveal diverse microbial associations during eukaryogenesis go.nature.com/3Sjm8ZY
go.nature.com
Gene ancestries reveal diverse microbial associations during eukaryogenesis - Nature
Phylogenomic reconstruction of the proteome of the last eukaryotic common ancestor sheds light on the origin of eukaryotes, indicating an important role of horizontal transfer of genes from diverse bacterial and viral donors.
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Zikang (Dennis) Huang @dennishuang.bsky.social · 06/06/2026
A synNotch based reaction diffusion system!
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Zikang (Dennis) Huang @dennishuang.bsky.social · 28/05/2026
Very impressive work from my friend Xinyi! www.nature.com/articles/s41...
nature.com
Programmable macromolecule delivery via engineered trogocytosis - Nature Cell Biology
Chen et al. engineer TRANSFER (trogocytosis-inspired receptor transfer and functional effector release), a method to deliver functional cargos from donor to recipient cells in a specific manner via di...
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Zikang (Dennis) Huang @dennishuang.bsky.social · 28/05/2026
www.science.org/doi/10.1126/...
science.org
Scalable and cost-efficient custom gene library assembly from oligopools
OMEGA enables scalable, low-cost construction of large gene libraries using multiplexed Golden Gate assembly.
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bioRxiv Genomics @biorxiv-genomic.bsky.social · 02/01/2026
Multiplexed measurements of protein-protein interactions and protein abundance across cellular conditions using Prod&PQ-seq www.biorxiv.org/content/10.64898/20…
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Zikang (Dennis) Huang @dennishuang.bsky.social · 17/05/2026
Wild that Galvanin is sufficient to make some cells sense and migrate in electrical field - curious on the downstream signaling it induces to do so www.cell.com/cell/fulltex...
cell.com
Galvanin (TMEM154) is an electric-field sensor for directed cell migration
Galvanin is an electric-field sensor that links electrical cues to directed migration in rapidly moving cells.
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Helen Pearson @helenpearson.bsky.social · 08/05/2026
Some of the most wonderful Attenborough pictures here: www.nature.com/immersive/d4...
nature.com
A life in pictures: Celebrating Attenborough at 100
As the British naturalist celebrates a milestone birthday, we take a look at how his work has shaped science.
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Waggoner Lab @labwaggoner.bsky.social · 24/04/2026
Synthetic multicolor antigen-stabilizable nanobody platform for intersectional labeling and functional imaging @natmethods.nature.com @einsteinmededu.bsky.social @salkinstitute.bsky.social www.nature.com/articles/s41...
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Zikang (Dennis) Huang @dennishuang.bsky.social · 31/03/2026
Spring @ Penn
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Zikang (Dennis) Huang @dennishuang.bsky.social · 26/03/2026
www.nature.com/articles/s41...
nature.com
Oxygen supply through the tracheolar–muscle system does not constrain insect gigantism - Nature
New evidence suggests that diffusive oxygen transport through the tracheolar–muscle system is not the limiting factor on insect body size.
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Young Biophysicists Meeting @youngbiophymeet.bsky.social · 26/03/2026
Deadline approaching! Submit your abstracts for the 10th session of YBM by tomorrow. Abstract submission link: forms.gle/SBeQeAp9MR2U...
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Ravi Nath @ravi-nath.bsky.social · 17/03/2026
Lifelong behavioral screen reveals an architecture of vertebrate aging | Science Was a wonderful collaboration with @clairebedbrook.bsky.social, Libby Zhang, Scott Linderman, @brunetlab.bsky.social & @deisseroth.bsky.social www.science.org/doi/10.1126/...
science.org
Lifelong behavioral screen reveals an architecture of vertebrate aging
Mapping behavior of individual vertebrate animals across lifespan could provide an unprecedented view into the lifelong process of aging. We created a platform for high-resolution continuous behaviora...
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Zikang (Dennis) Huang @dennishuang.bsky.social · 19/03/2026
www.nature.com/articles/s41...
nature.com
Single-molecule peptide sequencing through reverse translation of peptides into DNA - Nature Biotechnology
Peptides are sequenced by converting each amino acid into amplifiable DNA barcodes.
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Zikang (Dennis) Huang @dennishuang.bsky.social · 16/03/2026
www.cell.com/cell/fulltex... Super smart design of a system for evolving dynamics, congrats!!
cell.com
Light-directed evolution of dynamic, multi-state, and computational protein functionalities
Optovolution leverages optogenetics and the yeast cell cycle to impose rapid, tunable selection, enabling the continuous evolution of light-responsive regulators, logic gates, and other complex protei...
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Zikang (Dennis) Huang @dennishuang.bsky.social · 12/03/2026
This is wild, our cellular clocks can be entrained by temp oscillations; even just 1.5C(!) changes; curious to see what happened molecularly to allow this big transition. www.science.org/doi/10.1126/...
science.org
A cellular basis for the mammalian nocturnal-diurnal switch
Early mammals were nocturnal while dinosaurs dominated the daytime. Mammalian transition to daytime activity accelerated after the Cretaceous-Paleogene extinction, but the underlying mechanisms remain...
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Zikang (Dennis) Huang @dennishuang.bsky.social · 12/03/2026
Not what I expected: increase in inter species feeding cooperativity is an indicator of many diseases www.science.org/doi/10.1126/...
science.org
Imbalance in gut microbial interactions as a marker of health and disease
Imbalances in the human gut microbiome, or dysbioses, are associated with multiple diseases but remain poorly understood. Existing biomarkers of dysbiosis fail to capture the ecological mechanisms tha...
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James Lingford @jameslingford.bsky.social · 22/02/2026
Structural ontogeny of protein-protein interactions: www.science.org/doi/10.1126/... Fundamental work on how PPIs (co)evolve, combining directed evolution and machine learning to reveal the role of chance and contingency.
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Zikang (Dennis) Huang @dennishuang.bsky.social · 09/02/2026
@GRC photoreceptor and signal transduction now! Please come and check my poster #22 on single proteins that’s adaptive to light stimulation!
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Lukasz Bugaj @bugajlab.bsky.social · 02/02/2026
Now in print at ACS Synbio! Introducing Aviatar: a concept for inducible translocation to any cell compartment using only a 1-component probe pubs.acs.org/doi/10.1021/...
pubs.acs.org
Optogenetic Translocation to Subcellular Compartments through Regulation of Protein Avidity
Inducible translocation to subcellular compartments is a common strategy for protein switches that control a variety of cell behaviors. However, existing switches achieve translocation through induced...
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Zikang (Dennis) Huang @dennishuang.bsky.social · 31/01/2026
Our new paper just out! pubs.acs.org/doi/10.1021/...
pubs.acs.org
Optogenetic Translocation to Subcellular Compartments through Regulation of Protein Avidity
Inducible translocation to subcellular compartments is a common strategy for protein switches that control a variety of cell behaviors. However, existing switches achieve translocation through induced...
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Zikang (Dennis) Huang @dennishuang.bsky.social · 31/01/2026
Wild that curling it up is the way to go for prolonging the recording period of protein tapes www.nature.com/articles/s41...
nature.com
Scalable and multiplexed recorders of gene regulation dynamics across weeks - Nature
Nature - Scalable and multiplexed recorders of gene regulation dynamics across weeks
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Di Jiang @dijiang319.bsky.social · 15/01/2026
🧬🔬@science.org A genetically encoded device for #transcriptome storage in mammalian cells | Science www.science.org/doi/10.1126/... @broadinstitute.org
science.org
A genetically encoded device for transcriptome storage in mammalian cells
Understanding how cells make decisions over time requires the ability to link past molecular states to future phenotypic outcomes. We present TimeVault, a genetically encoded system that records and s...
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Tay (Antonio J. Osuna Mascaró) @biotay.bsky.social · 14/01/2026
1/3 Jellyfish and anemones also sleep, despite not having a brain Not only do they sleep, but their behavior is affected if they lack sleep; they become clumsier and need to catch up on lost sleep. Interestingly, they sleep 8 hours a day, just like us. (paper) www.nature.com/articles/s41...
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Alice Ting @aliceyting.bsky.social · 08/01/2026
Can we design mutations that bias proteins towards desired conformational states? Today in @science.org, we introduce Conformational Biasing (CB), a simple and scalable computational method that uses contrastive scoring by inverse folding models to identify conformation-biasing mutations.
science.org
Computational design of conformation-biasing mutations to alter protein functions
Conformational biasing (CB) is a rapid and streamlined computational method that uses contrastive scoring by inverse folding models to predict protein variants biased toward desired conformational sta...
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Santa Fe Institute @sfiscience.bsky.social · 30/12/2025
Now accepting applications for SFI’s 2026 CSSS program, a 3-week experience for graduate students, postdoctoral fellows, and professionals to explore foundational theory, engage in collaborative projects, and connect with a global research community. Apply by Feb 4, 2026 www.santafe.edu/csss
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Zikang (Dennis) Huang @dennishuang.bsky.social · 30/12/2025
Contextual computation by competitive protein dimerization networks www.cell.com/cell/fulltex...
cell.com
Contextual computation by competitive protein dimerization networks
Competitive dimerization networks, in which protein monomers dimerize in various combinations, can perform diverse biochemical computations and can adapt those computations for different cell contexts...
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Zikang (Dennis) Huang @dennishuang.bsky.social · 25/12/2025
lol real love
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Zikang (Dennis) Huang @dennishuang.bsky.social · 17/12/2025
Another surprising result from our lab showing that condensation is dispensable in RTK fusion oncogenic signaling. Please be sure to look at non-condensing cells in your plate:) Very smart exp. design and analysis to convincingly show sth *isn’t* important.
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Zikang (Dennis) Huang @dennishuang.bsky.social · 16/12/2025
Latest from our group investigating how oncogenic RTK fusions both activate and suppress mitogenic signaling. Also beautifully demonstrated that condensates are dispensable for both roles together with another preprint coming out soon.
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bioRxiv SysBio @biorxiv-sysbio.bsky.social · 15/12/2025
Predicting and Controlling Collective Fate in Multicellular Systems www.biorxiv.org/content/10.64898/20…
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Zikang (Dennis) Huang @dennishuang.bsky.social · 09/12/2025
One of the most interesting discoveries of the year - the immune function of degraded proteins Also fun to think about how this whole proteome coordination has evolved www.nature.com/articles/s41...
nature.com
Cell-autonomous innate immunity by proteasome-derived defence peptides - Nature
Proteasomal degradation of cellular proteins generate defence peptides constitutively and in response to bacterial infection. Such peptides might provide a source of natural antibiotics that...
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Lukasz Bugaj @bugajlab.bsky.social · 08/12/2025
#Cellbio2025 come see the latest from the lab, including on opto/thermogenetics, condensates, RTK fusions, stress granules, biosensors of clustering. Talks and posters today and tomorrow!
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Zikang (Dennis) Huang @dennishuang.bsky.social · 08/12/2025
Our neighbor @hugheslabpenn.bsky.social grows cool opto-kidneys, check them out!
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Zikang (Dennis) Huang @dennishuang.bsky.social · 07/12/2025
#cellbio2025 please stop by my talk (Mon 4:35 evolution) and poster (Mon 12:45 #B479 optogenetics) tmr! Title: Intraprotein domain competition dictates pulsatile response of photoreceptors shaped by temperature and evolution. BcLOV4 as a model. I’m also looking for postdoc opportunities!
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Lukasz Bugaj @bugajlab.bsky.social · 07/12/2025
#CellBio2025 come check out the workshop on applying optogenetic tools in cell biology! Today (Sunday) at 5:30p in Rm 121. Note that this session does *not* appear in the app for some reason
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Zikang (Dennis) Huang @dennishuang.bsky.social · 02/12/2025
In vivo proteomics www.cell.com/molecular-ce...
cell.com
In vivo proteomic labeling reveals diverse proteomes for therapeutic targets
Wang et al. establish an in vivo proteomic labeling (IVPL) system combining the Btn-Ph-3F substrate with APEX2-EGFPf/f Cre crosses to map cell-type-specific proteomes in intact organs and trace patien...
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