Sullivan Lab

Studying how epigenetic regulation controls cell identity and behaviour in development and disease. @ACEpigenetics and @SAiGENCI.

[Stem Cell Foundation @AusStemCell]

Don’t miss out on joining ABC’s @natashamitchell in conversation with top cancer and stem cell experts at a FREE event in Adelaide this Sunday 10 November at 3pm ACDT (IRL, livestreamed and on Radio National Big Ideas): https://t.co/7vY1HNqwVI
@abcnews @UniofAdelaide @the_ASSCR

[Sullivan Lab @SullivanLab8]

Opportunities to do amazing science with an amazing team!! :)

[luke isbel @LukeIsbel]

Exciting Masters/PhD opportunities in Adelaide Australia, balancing creativity, excellence and inclusion!! Please join if your interested in Genomics and making a difference through research!! Please share with your networks!!!

[Sullivan Lab @SullivanLab8]

Congratulations, Luke!! This is an amazing achievement and surely the start of some wonderful science!

[South Australian immunoGENomics Cancer Institute @SAiGENCI]

@SAiGENCI are proud to announce @LukeIsbel as @UniofAdelaide first Viertel Fellow. Find all the details at https://t.co/vbNKv23sQY Congratulations Luke! Excited to see the next stage of your science develop here at @SAiGENCI! @ACEpigenetics 👏🎉🧪

[Sullivan Lab @SullivanLab8]

@ACEpigenetics @CSL @QiZhang85 @EMBLAustralia @UniofAdelaide @SAiGENCI Congratulations Qi! Thank you for letting me share such a wonderful event. :) Very well-deserved!

[Sullivan Lab @SullivanLab8]

Congratulations Qi!! A well-deserved recognition of your amazing work. :)

[Adelaide Centre for Epigenetics @ACEpigenetics]

ACE is honoured to celebrate Dr Qi Zhang's prestigious @CSL Centenary Fellowship! What an incredible achievement. Congratulations @QiZhang85, we cannot wait to see what's next 🧬👏 @EMBLAustralia @UniofAdelaide @SAiGENCI

[Luciano Martelotto 🛠🧬💻🇦🇺 @LGMartelotto]

Yes!!! You got this right…Single Cell Imaging IS the new Single Cell Sequencing…#STAMP-X/C/M brought to you by @DrJasPlummer, @hoheyn and yours truly.

Stay tuned for more…👊

THE REAL STARS: @EmanuelePitino1 @AnnaPascua16627 @Kellieiswise @ximbaozao @irepan_salvador @helucro @eliseinsing and lots of X-less friends like Bill Flynn.

@brukerspatial @10xGenomics @vizgen_inc @ACEpigenetics @StJudeResearch @UniofAdelaide @cnag_eu

[Sullivan Lab @SullivanLab8]

So happy to see this amazing technique being well-received! Massive congratulations to Luciano and team!

[Luciano Martelotto 🛠🧬💻🇦🇺 @LGMartelotto]

Following several kind requests, here is a high-level summary of our pre-print in @biorxivpreprint (doi: https://t.co/m4OHy3BP5N):

STAMP: Single-Cell Transcriptomics Analysis and Multimodal Profiling through Imaging

STAMP is a scalable, cost-efficient method for single-cell transcriptomics and multimodal profiling through imaging. It bypasses sequencing, significantly reducing costs while enhancing throughput.
#SingleCellRNA #SpatialOmics #STAMP

The motivation for this paper comes from the limitations of current scRNA-seq methods, which are costly, inefficient, and struggle to capture low- and high-abundance transcripts. Challenges like droplet instability, cell damage, limited cell capture, cross-contamination, inefficient indexing, and high sequencing costs affect ultra-low and ultra-high cell profiling, hindering accurate analysis of complex cell populations. #Limitations #DropletMicrofluidics

STAMP addresses these issues with a scalable, cost-effective, sequencing(costs)-free approach that works efficiently across ultra-low to ultra-high cell numbers, while preserving cellular morphology and enabling multimodal profiling. #SpatialOmics #UltraLow #UltraHigh

STAMP uses an imaging-based approach to perform high-throughput RNA and protein profiling by stamping cells onto slides compatible with CosMx and Xenium platforms, allowing multimodal profiling in a single run.
#Proteomics

STAMP supports single-modal (RNA/protein) and multimodal (RNA + protein) profiling, enhancing experimental flexibility and scalability. This versatility is essential for large-scale atlases and mixed-sample experiments.
#SingleCellAtlas #MultiSampleProfiling

STAMP scales easily: from less than 100 to millions of cells. It overcomes limitations in droplet-based systems, where throughput is often constrained by sequencing costs.
#HighThroughput

STAMP handles diverse sample types: PBMCs, dissociated tumors, nuclei, and stem cells. It also excels with fragile or archived tissues, where traditional methods often fail to yield high-quality data.
#ArchivedSamples

STAMP eliminates sequencing costs, making large-scale single-cell analysis accessible to more labs. #CostEfficiency

Here’s a cost comparison between GEM-X and STAMP-X for RNA profiling:

GEM-X RNA (20k cells): $0.0764/cell
1M cells = $76,400 (cost/cell = $0.0764)
2M cells = $152.800 (cost/cell = $0.0764)
3M cells = $229,200 (cost/cell = $0.0764)

STAMP-X RNA (1M cells): $0.0075/cell
1M cells = $7,500 (cost/cell = $0.0075)
2M cells = $7,500 (cost/cell = $0.00375)
3M cells = $7,500 (cost/cell = $0.0025)

In STAMP cells remain intact after imaging, enabling further downstream applications like histological validation or additional molecular assays, adding value to each sample.
#NonDestructiveAnalysis

We tested STAMP’s sensitivity by identifying, ultra-rare, circulating tumor cells (CTCs) spiked into PBMCs at 1:100,000. Such sensitivity is essential for clinical diagnostics, particularly in rare cell detection.
#CTCs #CancerDiagnostics

In a high-throughput immuno-phenotyping experiment, STAMP profiled 1.7M PBMCs, capturing a median of 83 transcripts and 49 genes per cell. This resulted in high-resolution immune profiling.
#Immunology #HighThroughputProfiling

31 immune cell states were mapped in PBMCs, capturing rare subpopulations (Th1/Th2/Th17 and NK subtypes). Detailed immune phenotyping is critical for understanding immune diversity in health and disease.
#ImmuneMapping

Whole cells vs. nuclei: STAMP's ability to profile both whole cells and nuclei is crucial for samples with low RNA content (e.g., archived tissues), increasing the platform’s applicability.
#NucleiProfiling #SingleCellOmics

STAMP integrates RNA and protein profiling. In cancer cell line profiling, RNA and protein data showed strong correlations, confirming the platform’s robustness in multimodal data collection.
#MultimodalProfiling

STAMP’s multimodal profiling produced high-resolution immune maps, combining RNA and protein data. This approach is essential for dissecting complex immune states and understanding functional responses.

STAMP excels in low-input samples. We demonstrated its ability to accurately profile as few as 100 cells, which is critical for studying rare populations in small samples.
#LowInput #RareCell

In a BMP4-driven stem cell differentiation model, STAMP captured dynamic changes from pluripotency to mesoderm and endoderm progenitors over multiple timepoints, tracking lineage differentiation.
#StemCellDifferentiation #LineageTracing

Trajectory analysis shows that STAMP’s resolution makes it a powerful tool for developmental biology and perturbation studies.
#DevelopmentalBiology #hESC

STAMP allows multi-sample profiling on a single slide, reducing batch effects and improving comparative analysis, particularly in drug response and perturbation studies.
#MultiSampleAnalysis #PerturbationScreening

STAMP represents a significant advance in single-cell research, offering scalable, multimodal RNA/protein profiling at low cost. Its versatility will support a broad range of research, from basic to clinical.
#SingleCellTechnology

Lots more coming soon...

@DrJasPlummer @hoheyn @pascual_reguant @EmanuelePitino1 @helucro @ximbaozao @irepan_salvador @Kellieiswise @m_mohenska @jc_nietos @cnag_eu @StJudeResearch @ACEpigenetics @M_ayco_N @eliseinsing Bill Flynn, Yutian Liu, Hannah Chasteen

[Sullivan Lab @SullivanLab8]

Congratulations to Ash @ashleigh_bryar for her poster prize presenting her PhD work! 🎉

[Ashleigh Geiger @ashleigh_bryar]

Pretty stoked to win an ASBMB poster prize at @bmh2024Melb, alongside fellow eye CRISPR PhD candidate and friend Lachi Staker 🧬✂️👀

[Sullivan Lab @SullivanLab8]

A chance to do brilliant things in a brilliant lab in London!

[Vicki Metzis @metzisv]

ICYMI: we are hiring! Come and join us ⁦@MRC_LMS⁩ for a #postdoc

#regulatorylogic #devbio #stemcellmodels in an excellent environment with fantastic support and colleagues :) https://t.co/lRqUnOsOKw

[Sullivan Lab @SullivanLab8]

A reminder that this amazing stem cell meeting is happening in November in Adelaide! Early bird closes Sept 27th!

[Australasian Society for Stem Cell Research @the_ASSCR]

Don’t miss out on discounted rates for the ASSCR ASM! Register by 27th Sept to secure your spot 👉 https://t.co/ra2v3vxcEy

Reminder: Book your flights & accommodation early to avoid high costs. ✈️🏨

See you in Adelaide!

[Sullivan Lab @SullivanLab8]

Please consider supporting the amazing cancer research at @SAiGENCI today! We are an independent cancer research institute at @UniofAdelaide working to understand and treat cancer. All donations are matched and tax-deductable! #UoAGivingDay https://t.co/pszaPHYKf8

[Adelaide Centre for Epigenetics @ACEpigenetics]

ACE is proud to support @UniofAdelaide Giving Day! A wonderful day when our community unites to support great causes like cancer research @SAiGENCI! You can learn more and donate here: https://t.co/ixG4OLvBmJ

[Joanna Achinger-Kawecka @aachinger]

Please RT! 🧬🧬
I am looking for a #postdoc fellow to lead a new project in 3D chromatin organisation and transcriptional regulation in cancer (experimental and/or computational) at @SAiGENCI in Adelaide.
Apply below:
https://t.co/Uxeq1G9iI6

[Stefano Mangiola @steman_research]

📢⌛︎Only a few days left to apply for these Postdoc/PhD positions!

- AI / single-cell / spatial modelling in collaboration with @TheAIML and Vince Carey (#Harvard Medical School @harvardmed)

- #tidyomics in collaboration with Michael Love @mikelove (@UNC)

[Luciano Martelotto 🛠🧬💻🇦🇺 @LGMartelotto]

Senior Scientist - Spatial-Omics Innovation and Development Research Collaborations between ⁦⁦@AGRF_genomics⁩ and my lab. Details in the add. https://t.co/Roquxttaxn

[Kirk Jensen @kirkbjensen]

Amazing Tomocube images of hESCs from the @SullivanLab8 at @ACEpigenetics. Want to visualise your cells label-free at an incredible resolution of only 156 nm? The HT-X1 will be on trial for another two weeks at Adelaide Microscopy- contact us to try it out!
@micro_au
@Tomocubeinc

[Sullivan Lab @SullivanLab8]

🎉Massive congratulations to Jose!! Very well-deserved.

[Australian Academy of Science @Science_Academy]

Professor Jose Polo FAA (@UniOfAdelaide), a leading biochemist, stem cell biologist and now Academy Fellow, has significantly advanced our knowledge of cellular reprogramming—the process by which cells transform into different types. His innovative work combines cellular models, genomics, and computational methods, propelling forward the fields of reprogramming and stem cell research. Polo's influential work has had a global impact, fostering scientific progress and industrial applications. #FellowsAA

[Sullivan Lab @SullivanLab8]

This was such an excellent experience, I'm thankful to the organisers and everyone who came along for an evening of science!

[Adelaide Centre for Epigenetics @ACEpigenetics]

Congratulations to ACE leaders Jose, @SullivanLab8 and @LukeIsbel for their outstanding presentations and work on cancer epigenetics at @SAiGENCI ‘s second annual public lecture! (Video link @ the end) (1/5)

[Australasian Society for Stem Cell Research @the_ASSCR]

Join us for our 2024 Annual @the_ASSCR conference in Adelaide, Nov 11-13. Our program is already jam-packed with stem cell rock stars 🎸👇 and there's more to come...
Abstract submissions OPEN! Register NOW for early-bird rates! https://t.co/06wq1a9H8k

[Sullivan Lab @SullivanLab8]

An absolutely brilliant opportunity - come learn cutting-edge spatial technologies from an expert (and be paid!)

[Luciano Martelotto 🛠🧬💻🇦🇺 @LGMartelotto]

Loving #Visium HD! 32 scheduled runs non-stop till October, plus ongoing #Chromium and #Xenium projects! We need help…tons of it!. Living in Australia and interested in a paid internship? Then email me or my team directly, and we can discuss the details. It can be fun!