@ErinSoon_

PhD student @stanfordimmuno @astar_research. Multiplexed imaging, maternal-fetal interface, computational tools for image analysis. https://xitter.cf/t.co/AJ9cZmzmqH

 Bay Area, CA
Joined June 2020
  • Tweets39
  • Following169
  • Followers189
9Media
Very excited to have our work out in @Nature today – a huge effort with @MikeAngeloLab @Inna_Averbukh @ShirleyGreenba1 @_hubmap 🤰🤰 Check it out here! nature.com/articles/s41586-0…

A spatially resolved timeline of the human maternal–fetal interface

Nature - A multiomics approach is used to produce a spatiotemporal atlas of the human maternal–fetal interface in the first half of pregnancy, revealing relationships among gestational age,...

nature.com
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The second annual Spatial Biology Workshop is just two weeks away! This free event will showcase the power of spatial techniques to answer biological questions. We'll be showcasing new methods for data generation and analysis, as well as the novel findings they enable (1/x)
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Excited to see this published! Check out Pixie, a pipeline for quantifying non-cellular features (as well as improving cell classifications) in multiplexed images. nature.com/articles/s41467-0…

Robust phenotyping of highly multiplexed tissue imaging data using pixel-level clustering

Nature Communications - Multiplexed imaging studies are typically focused on cell-level phenotypes. Here, the authors propose Pixie, a cross-platform and open-source pipeline that achieves robust...

nature.com
Candace Liu@CandaceCLiu17 Aug 2022
Excited to share the latest preprint with @MikeAngeloLab! While imaging studies often focus on cell objects, images capture significant info outside of cells. Enter Pixie, a pipeline for the quantitative annotation of both pixel and cell level features🧵biorxiv.org/content/10.1101/…

Robust phenotyping of highly multiplexed tissue imaging data using pixel-level clustering

While technologies for multiplexed imaging have provided an unprecedented understanding of tissue composition in health and disease, interpreting this data remains a significant computational...

biorxiv.org
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A paper published in @Nature presents a reference cell map for the human maternal–fetal interface (where placenta and maternal cells coexist), which is part of the Human BioMolecular Atlas Program (HuBMAP) published across the Nature Portfolio journals. go.nature.com/3Dm0RUY
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Erin Soon retweeted
nature
@Nature19 Jul 2023
Nature research paper: A spatially resolved timeline of the human maternal–fetal interface go.nature.com/44O7TgO
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Our new @_hubmap study examining how the maternal fetal interface is established in human pregnancy is out! Big effort led by @Inna_Averbukh, @ErinSoon_ , @ShirleyGreenba1. So proud of the beautiful study they completed! nature.com/articles/s41586-0…

A spatially resolved timeline of the human maternal–fetal interface

Nature - A multiomics approach is used to produce a spatiotemporal atlas of the human maternal–fetal interface in the first half of pregnancy, revealing relationships among gestational age,...

nature.com
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Replying to @ErinSoon_ @Nature @MikeAngeloLab @Inna_Averbukh @ShirleyGreenba1 @_hubmap
We created the first spatio-temporal multi-omic tissue atlas of the human maternal-fetal interface at single-cell resolution. Best of all, this data is readily available online so you can view our beautiful #MIBITOF images here: hubmapconsortium.org/nature-…
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🧵👇 xitter.cf/ErinSoon_/status/14363…
Erin Soon@ErinSoon_10 Sep 2021
Replying to @ErinSoon_
In pregnancy, fetal cells invade the mother’s uterus. They remodel arteries and replace part of the artery lining 🤯 This is an immunological mystery and it’s *required* for healthy pregnancy. Impaired invasion and remodeling are implicated in many pregnancy complications [2/9]
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Come check out #_hubmap’s new body of knowledge and discoveries in the newly released @Nature paper package – Da Vinci himself would give us a Mona Lisa smile for this renaissance of technology and imaging! nature.com/articles/s41556-0…
Graphic shows two images. Image on the left is Da Vinci's Vitruvian Man sketch, heading text reads "how it started." Image on the right is cover of Nature journal showing 3D image of the heart, heading text reads "how it's going."

ALT Graphic shows two images. Image on the left is Da Vinci's Vitruvian Man sketch, heading text reads "how it started." Image on the right is cover of Nature journal showing 3D image of the heart, heading text reads "how it's going."

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nature
@Nature19 Jul 2023
This week in Nature: Body image - HuBMAP initiative maps human organs at single-cell resolution Read the full issue: nature.com/nature/volumes/61…
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Thrilled to share the preprint from my postdoc work in the @Bendall_Lab with @MikeAngeloLab and Thomas Montine at @StanfordMed looking at human microglia in situ in #aging and #Alzheimers disease by multiplexed proteomic imaging! shorturl.at/agCN0
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We're excited to announce that the 2nd annual Spatial Biology Workshop will be taking place August 28th-30th at Stanford. The workshop will cover new techniques and tools for generating and analyzing spatial data, as well as new biology discovered using spatial methods.
Flyer announcement for workshop, which will take place August 28th-30th at Stanford.

ALT Flyer announcement for workshop, which will take place August 28th-30th at Stanford.

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Erin Soon retweeted
Joy Pai@joyp_ai30 Mar 2023
Excited to share that our work on regional T cell clonal responses to immune checkpoint blockade is out now! Very grateful to @AndrewChowMDPhD, Matthew Hellmann, @Satpathology, and all other co-authors for this wonderful collaboration. Check it out here! authors.elsevier.com/c/1gqic…
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Theodora@theobruun22 Mar 2023
Better late than never! Happy to share this work alongside my co-authors including @StevenTangPhD @grahamserwin out now @JBC. Initially, we were interested in studying the gp41 pocket of HIV-1, a highly conserved drug/vaccine target..🧵(1/5) doi.org/10.1016/j.jbc.2023.1…
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Excited to share my preprint with @Bendall_Lab and @WJGreenleaf on novel human lymphoid progenitors! Turns out they had been misidentified as myeloid progenitors thus far. Check out how we revealed their true identity in the tweetorial below 🧵biorxiv.org/content/10.1101/…

Expression of terminal deoxynucleotidyl transferase (TdT) identifies lymphoid-primed progenitors in...

Lymphoid specification in human hematopoietic progenitors is not fully understood. To better associate lymphoid identity with protein-level cell features, we conducted a highly multiplexed single-c...

biorxiv.org
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Excited to share the latest preprint with @MikeAngeloLab! While imaging studies often focus on cell objects, images capture significant info outside of cells. Enter Pixie, a pipeline for the quantitative annotation of both pixel and cell level features🧵biorxiv.org/content/10.1101/…

Robust phenotyping of highly multiplexed tissue imaging data using pixel-level clustering

While technologies for multiplexed imaging have provided an unprecedented understanding of tissue composition in health and disease, interpreting this data remains a significant computational...

biorxiv.org
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Cell Patterns interviewed David and I for the "People of Data" article in their August issue! We talk about our journey as (data) scientists, how the HSS-LDA project started, and more. Check it out to learn a bit more about us beyond the research! cell.com/patterns/fulltext/S…

Data science through the lens of systems immunology

Glass, a post-doctoral researcher, and Amouzgar, a PhD student, in Bendall lab proposed a supervised dimensionality reduction method to explore and analyze single-cell data. Their Patterns paper...

cell.com
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Thrilled to share that our HSS-LDA manuscript is out in Cell Patterns! Supervised dimensionality reduction for exploration of single-cell data by Hybrid Subset Selection - Linear Discriminant Analysis (HSS-LDA) cell.com/patterns/fulltext/S…

Supervised dimensionality reduction for exploration of single-cell data by HSS-LDA

Amouzgar et al. repurpose the classification algorithm, LDA, for supervised dimensionality reduction of single-cell data. Paired with HSS for feature selection, LDA creates intuitive visualizations,...

cell.com
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Our review on mass cytometry methods is out! Plenty of tips/tricks and insight into applying MC to your research. Check it out on early access at authors.elsevier.com/a/1ebUL… and a BIG thank you to my co-first author @kimmey_sam with support from @Bendall_Lab!
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Today I and @kausaliavbosse are thrilled to announce our @Bendall_Lab preprint profiling spatial proteomic imaging of single-cells and proteopathy in human neuropathology! #MIBI #NeuroTwitter #systemsbio biorxiv.org/content/10.1101/… (1/13)

Single-cell Spatial Proteomic Imaging for Human Neuropathology

Neurodegenerative disorders are characterized by phenotypic changes and hallmark proteopathies. Quantifying these in archival human brain tissues remains indispensable for validating animal models...

biorxiv.org
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