Spatial Omics Weekly | February 2023 Week 4

Weekly trends and developments in spatial -omics (February 19-25, 2023)

In the past week of spatial -omics there were

• ~14 related preprints published on bioRxiv

• ~12 related publications found on PubMed

• ~92 related tweets on Twitter

• 38 commits to spatial -omics repositories on Github

The most tweeted spatial -omic preprint of the past week was:

Multicellular factor analysis of single-cell data for a tissue-centric understanding of disease

The most tweeted spatial -omic publication of the past week was:

High-plex protein and whole transcriptome co-mapping at cellular resolution with spatial CITE-seq

The most popular spatial -omic tweet by engagement of the past week was:

Ming "Tommy" Tang @tangming2005

Spatial transcriptome is the next wave after single-cell RNAseq. Resources to bookmark to get into the field 👇 🧵

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Top five spatial -omic publications of the past week by altmetric scores

1. High-plex protein and whole transcriptome co-mapping at cellular resolution with spatial CITE-seq

   • Altmetric Score: 130

2. Reconstruction of the tumor spatial microenvironment along the malignant-boundary-nonmalignant axis

   • Altmetric Score: 19

3. Spatiotemporal mapping of immune and stem cell dysregulation after volumetric muscle loss

   • Altmetric Score: 8

4. Hypercapnia alters stroma-derived Wnt production to limit β-catenin signaling and proliferation in AT2 cells

   • Altmetric Score: 5

5. Insulin-like growth factor 1 reduces coronary atherosclerosis in pigs with familial hypercholesterolemia

   • Altmetric Score: 4

(Results collected 2023-02-26T10:52:36.333 EST)

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Top five spatial -omic tweets of the past week

Ming "Tommy" Tang @tangming2005

Spatial transcriptome is the next wave after single-cell RNAseq. Resources to bookmark to get into the field 👇 🧵

2.

Rong Fan @RongFan8

Thrilled to see our new paper out in @NatureBiotech . Spatial-CITE-seq: spatially resolved co-indexing of transcriptome and epitopes for multi-omics sequencing. Big shoutout to Yang Liu, my former postdoc @YaleBme and now assistant professor of pathology and neurology @YaleMed ! https://t.co/QcgMdZqVYf

Nature Biotechnology @NatureBiotech

High-plex protein and whole transcriptome co-mapping at cellular resolution with spatial CITE-seq https://t.co/9s8QY6JonQ https://t.co/7kTIV9dUMu

Simona Cristea @simocristea

🚨New #SpatialTranscriptomics #Bioinformatics data resource out in @naturemethods. SODB, a platform with >2,400 manually curated spatial experiments from >25 spatial omics technologies & interactive analytical modules. This🧵will walk you through all the features of SODB [1/33]

4.

Nature Biotechnology @NatureBiotech

High-plex protein and whole transcriptome co-mapping at cellular resolution with spatial CITE-seq go.nature.com/3koGTTC

5.

Saez-Rodriguez Group @saezlab

Cross-condition single cell data are essential for biomedicine💊🏥 and tissue-centric descriptions are needed. We propose a 💻 framework for its sample-level unsupervised analysis and the estimation of multicellular programs. 📄You can read the preprint at tinyurl.com/mvptmsem

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Top spatial -omic package development activity this past week on Github

• Added stereopy to the list

• spatialLIBD releases v1.11.8 on ‘master’ branch

  

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Interested in other trends, packages or branches? Have feedback? Please reach out with any suggestions!