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gestaltsp.bsky.social
GESTALT
@gestaltsp.bsky.social
340 followers 340 following 3 posts
Global Alliance for Spatial Technologies: an organized whole that is perceived as more than the sum of its parts. Democratizing Spatial-Omics Techs
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lgmartelotto.bsky.social
Luciano Martelotto @lgmartelotto.bsky.social · 5d
iSCALE

www.nature.com/articles/s41...
Scaling up spatial transcriptomics for large-sized tissues: uncovering cellular-level tissue architecture beyond conventional platforms with iSCALE - Nature Methods
iSCALE leverages histology and spatial transcriptomics to infer gene expression at super resolution in large tissues.
www.nature.com
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natrevgenet.nature.com
Nature Reviews Genetics @natrevgenet.nature.com · Aug 21
New online! Imaging-based multimodal profiling of single cells with STAMP
Imaging-based multimodal profiling of single cells with STAMP
Nature Reviews Genetics, Published online: 21 August 2025; doi:10.1038/s41576-025-00891-6In this Tools of the Trade article, Kellie Wise and Anna Pascual-Reguant introduce STAMP (single-cell transcriptomics analysis and multimodal profiling), which harnesses imaging to measure RNA and/or protein expression in fixed cells or nuclei.
www.nature.com
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Reposted by GESTALT
lgmartelotto.bsky.social
Luciano Martelotto @lgmartelotto.bsky.social · Aug 22
Very proud of these two!

Anna Pascual Reguant | Kellie Wise

A beautiful collaboration with Jasmine Plummer & Holger Heyn

CNAG | St Jude Children’s Research Hospital

#STAMP

Imaging-based multimodal profiling of single cells with STAMP | Nature Reviews Genetics

www.nature.com/articles/s41...
Imaging-based multimodal profiling of single cells with STAMP - Nature Reviews Genetics
In this Tools of the Trade article, Kellie Wise and Anna Pascual-Reguant introduce STAMP (single-cell transcriptomics analysis and multimodal profiling), which harnesses imaging to measure RNA and/or ...
www.nature.com
3 9
Reposted by GESTALT
larsplus.bsky.social
Lars Velten @larsplus.bsky.social · Jun 23
Congrats @hoheyn.bsky.social , @lgmartelotto.bsky.social and team!
labwaggoner.bsky.social
Waggoner Lab @labwaggoner.bsky.social · Jun 17
STAMP: Single-cell transcriptomics analysis and multimodal profiling through imaging @cellcellpress.bsky.social @lgmartelotto.bsky.social @hoheyn.bsky.social
www.cell.com/cell/fulltex...
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lgmartelotto.bsky.social
Luciano Martelotto @lgmartelotto.bsky.social · Jun 27
Tracing colorectal malignancy transformation from cell to tissue scale

www.biorxiv.org/content/10.1...
Tracing colorectal malignancy transformation from cell to tissue scale
The transformation of normal intestinal epithelium into colorectal cancer (CRC) involves coordinated changes across molecular, cellular, and architectural scales; yet, how these layers integrate remai...
www.biorxiv.org
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lgmartelotto.bsky.social
Luciano Martelotto @lgmartelotto.bsky.social · Jul 3
STAMP brings us non-destructive single-cell profiling without the sequencing

www.omic.ly/stamp-brings...
STAMP brings us non-destructive single-cell profiling without the sequencing
No sequencer needed: Imaging based single-cell multiomics
www.omic.ly
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jasmineplummer.bsky.social
Jasmine Plummer @jasmineplummer.bsky.social · Jul 17
Counting my lucky stars⭐️that not only do I get to work with these amazing scientists Jiwoon Park @christophermason.bsky.social but also give fun @cshlnews.bsky.social lectures together💪.Big thank you to @lgmartelotto.bsky.social Nicholas Navin Julea Vlassakis for uniting this #singlecell #dreamteam
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lgmartelotto.bsky.social
Luciano Martelotto @lgmartelotto.bsky.social · Aug 5
www.biorxiv.org/content/10.1...
Integrating 12 Spatial and Single Cell Technologies to Characterise Tumour Neighbourhoods and Cellular Interactions in three Skin Cancer Types
Cutaneous squamous cell carcinoma (cSCC), basal cell carcinoma (BCC), and melanoma, the three major types of skin cancer, account for over 70% of all cancer cases. Despite their prevalence, the skin c...
www.biorxiv.org
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gestaltsp.bsky.social
GESTALT @gestaltsp.bsky.social · Jun 22
Don’t forget to register to the seminar on June 27 and July 25:

GESTALT - Seminar Series

June 27 - 2025: Dr. Fei Chen
July 25 - 2025: Dr. Hanchen Wang

Please visit the Seminar Series Webpage for more information and registration: globalspatial.org/seminar-seri...
Seminar Series – GESTALT – Global Alliance for Spatial Technologies
globalspatial.org
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drjnoonan.bsky.social
drjnoonan.bsky.social @drjnoonan.bsky.social · Jun 18
Awesome work by awesome people! Endless innovation by @lgmartelotto.bsky.social and team.

Can’t wait to try it 💪
STAMP: Single-cell transcriptomics analysis and multimodal profiling through imaging
Single-cell transcriptomics analysis and multimodal profiling (STAMP) by imaging enables single-cell analysis of cells in suspension without the need for sequencing. The markedly reduced costs and fle...
www.cell.com
4 6
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jasmineplummer.bsky.social
Jasmine Plummer @jasmineplummer.bsky.social · Jun 17
STAMP:Single cell Transcriptomics Analysis & Multimodal Profiling-cheap scprofiling-MILLIONS of cells, multimodal, pertubation expts & tissue atlas'ing at scale.Thx to brilliant colleagues @lgmartelotto.bsky.social Holger Heyn & our amazing teams. @cellpress.bsky.social www.cell.com/cell/abstrac...
stjuderesearch.bsky.social
St. Jude Research @stjuderesearch.bsky.social · Jun 17
“STAMP allows us to profile a million cells simultaneously, compared to tens of thousands typical of current methods, making it far more scalable,” said @jasmineplummer.bsky.social, PhD, St. Jude Center for Spatial Omics director.
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stjuderesearch.bsky.social
St. Jude Research @stjuderesearch.bsky.social · Jun 17
“STAMP allows us to profile a million cells simultaneously, compared to tens of thousands typical of current methods, making it far more scalable,” said @jasmineplummer.bsky.social, PhD, St. Jude Center for Spatial Omics director.
3 4
Reposted by GESTALT
labwaggoner.bsky.social
Waggoner Lab @labwaggoner.bsky.social · Jun 17
STAMP: Single-cell transcriptomics analysis and multimodal profiling through imaging @cellcellpress.bsky.social @lgmartelotto.bsky.social @hoheyn.bsky.social
www.cell.com/cell/fulltex...
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cnag-eu.bsky.social
CNAG @cnag-eu.bsky.social · Jun 17
👩‍🔬The lead authors of the study are Dr. @pascual-reguant.bsky.social & Emanuele Pitino (CNAG) with Felipe Segato Dezem (@stjuderesearch.bsky.social)

Corresponding authors: Dr. @hoheyn.bsky.social (CNAG), Dr. @jasmineplummer.bsky.social (St. Jude) & Dr. @lgmartelotto.bsky.social (Univ. of Adelaide)
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lgmartelotto.bsky.social
Luciano Martelotto @lgmartelotto.bsky.social · Jun 19
www.genomeweb.com/sequencing/t...
Team Seeks Adoption of Sequencing-Free, Imaging-Based Single-Cell Profiling Method
Developed by researchers in the US, Spain, and Australia, STAMP promises to reduce single-cell experiment costs almost 50-fold by eliminating the need for sequencing.
www.genomeweb.com
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gestaltsp.bsky.social
GESTALT @gestaltsp.bsky.social · May 23
www.nature.com/articles/s41...
Cell simulation as cell segmentation - Nature Methods
Proseg is a segmentation approach for single-cell spatially resolved transcriptomics data that uses unsupervised probabilistic modeling of the spatial distribution of transcripts to accurately segment...
www.nature.com
5
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lgmartelotto.bsky.social
Luciano Martelotto @lgmartelotto.bsky.social · Dec 26
www.nature.com/articles/s41...
ezSingleCell: an integrated one-stop single-cell and spatial omics analysis platform for bench scientists - Nature Communications
ezSingleCell is an interactive and user-friendly application for the analysis of single-cell and spatial omics data, without the need for programming expertise. Here, authors integrated top-performing...
www.nature.com
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tommytang.bsky.social
Ming Tommy Tang @tommytang.bsky.social · Dec 25
tidyplots is an R package to generate publication-ready plots for scientific papers tidyplots.org/ #rstats
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stephaniehicks.bsky.social
Stephanie Hicks @stephaniehicks.bsky.social · Dec 5
Excited to share a new algorithm that we have been working on over the last year.

💡 idea is to extend mutual nearest neighbors for
#spatial data. We call it spatial mutual nearest neighbors (spatialMNN) 😄

Thank you @haowen-zhou.bsky.social @pratibha-panwar.bsky.social who led this work! 👏 🧬🖥️🧪
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lgmartelotto.bsky.social
Luciano Martelotto @lgmartelotto.bsky.social · Dec 3
It is so nice to spend quality time with your favorite people in the world before the end of the year!

@jasmineplummer.bsky.social @alexswarbrick.bsky.social

At Multi-Ome 2024

Btw: my best pic yet!
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aliciao.bsky.social
Alicia Oshlack @aliciao.bsky.social · Nov 29
Happy to see our Damsel @bioconductor.bsky.social package published in Bioinformatics. Great work putting together this DamID sequencing and package from student Caitlin Page. Thanks to collaborators too @lonsbio.bsky.social

academic.oup.com/bioinformati...
Damsel: analysis and visualisation of DamID sequencing in R
AbstractSummary. DamID sequencing is a technique to map the genome-wide interaction of a protein with DNA. Damsel is the first Bioconductor package to prov
academic.oup.com
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gestaltsp.bsky.social
GESTALT @gestaltsp.bsky.social · Nov 30
It is important to clarify what you mean by real science. If ‘real’ refers to methodologically sound, evidence-driven, and reproducible research, then funding may not directly define the quality of the science, but it certainly influences the scale, tools, and opportunities available for doing it.
Reposted by GESTALT
jasmineplummer.bsky.social
Jasmine Plummer @jasmineplummer.bsky.social · Nov 26
#singlecell to #spatial converts .. means a lot more python than r… great tool to help transition academic.oup.com/bioinformati...
easySCF: A Tool for Enhancing Interoperability Between R and Python for Efficient Single-Cell Data Analysis
AbstractSummary. This study introduces easySCF, a tool designed to enhance the interoperability of single-cell data between the two major bioinformatics pl
academic.oup.com
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vjsanchez.bsky.social
Victor Javier @vjsanchez.bsky.social · Nov 23
MCGAE: unraveling tumor invasion through integrated multimodal spatial transcriptomics #SingleCell 🧬🖥️ academic.oup.com/bib/article/...
MCGAE: unraveling tumor invasion through integrated multimodal spatial transcriptomics
Abstract. Spatially Resolved Transcriptomics (SRT) serves as a cornerstone in biomedical research, revealing the heterogeneity of tissue microenvironments.
academic.oup.com
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