Xavier Grau-Bové🌾Dec 22

New paper from the lab!

Decoding cnidarian cell type gene regulation, now in Nature Ecology and Evolution

https://www.nature.com/articles/s41559-025-02906-1

From a personal POV, tagging along with https://martaig.bsky.social and https://aelek.bsky.social while they developed this project has been one big learning opportunity. In Nematostella biology, clever omics, evo-devo, and more.

Check out this thread on bluesky to learn more:

https://bsky.app/profile/arnausebe.bsky.social/post/3makyprqrfk2g

#evodevo #evolution #development #nematostella #singlecellomics

Decoding cnidarian cell type gene regulation - Nature Ecology & Evolution

This study reconstructs the gene regulatory networks that define cell types in the sea anemone Nematostella vectensis, providing a valuable resource for comparative regulatory genomics and the evolution of new cell types.

Nature
Xavier Grau-Bové🌾Dec 22

New paper from the lab!

Decoding cnidarian cell type gene regulation, now in Nature Ecology and Evolution

https://www.nature.com/articles/s41559-025-02906-1

From a personal POV, tagging along with https://martaig.bsky.social and https://aelek.bsky.social while they developed this project has been one big learning opportunity. In Nematostella biology, clever omics, evo-devo, and more.

Check out this thread on bluesky to learn more:

https://bsky.app/profile/arnausebe.bsky.social/post/3makyprqrfk2g

#evodevo #evolution #development #nematostella #singlecellomics

Decoding cnidarian cell type gene regulation - Nature Ecology & Evolution

This study reconstructs the gene regulatory networks that define cell types in the sea anemone Nematostella vectensis, providing a valuable resource for comparative regulatory genomics and the evolution of new cell types.

Nature
nf-coreDec 15

Pipeline release! nf-core/pixelator v2.3.0 - nf-core/pixelator 2.3.0!
Pipeline to generate Molecular Pixelation data with Pixelator (Pixelgen Technologies AB)
Please see the changelog: https://github.com/nf-core/pixelator/releases/tag/2.3.0

#molecularpixelation #pixelator #pixelgentechnologies #proteins #singlecell #singlecellomics #nfcore #openscience #nextflow #bioinformatics

Release nf-core/pixelator 2.3.0 · nf-core/pixelator

[2.3.0] - 2025-12-11 From this release onwards, there will not be a default panel selected, i.e. as a user you must specify an exact version of the panel you want to use in your samplesheet, e.g. p...

GitHub
nf-coreSep 17

Pipeline release! nf-core/pixelator v2.1.0 - nf-core/pixelator 2.1.0!

Please see the changelog: https://github.com/nf-core/pixelator/releases/tag/2.1.0

#molecularpixelation #pixelator #pixelgentechnologies #proteins #singlecell #singlecellomics #nfcore #openscience #nextflow #bioinformatics

Release nf-core/pixelator 2.1.0 · nf-core/pixelator

[2.1.0] - 2025-09-17 Enhancements & fixes Move to using quay.io as the container source, to avoid issues with users needing to login to access the Github Container Registry by @johandahlberg in #1...

GitHub
Credence Research Europe LTDAug 30

The Single Cell Omics Market is booming—expected to surge from USD 1.96B in 2024 to USD 6.34B by 2032, at a CAGR of 15.8%. Precision medicine, multi-omics integration, and AI analytics are fueling growth.

Innovators like Illumina, 10x Genomics, Danaher, BD, CYTENA, and PerkinElmer are leading the way.

👉 View full report here.
https://www.credenceresearch.com/report/single-cell-omics-market

#SingleCellOmics #GenomicInnovation #BiotechResearch

nf-coreJun 24, 2025

Pipeline release! nf-core/pixelator v2.0.0 - nf-core/pixelator 2.0.0!

Please see the changelog: https://github.com/nf-core/pixelator/releases/tag/2.0.0

#molecularpixelation #pixelator #pixelgentechnologies #proteins #singlecell #singlecellomics #nfcore #openscience #nextflow #bioinformatics

nf-coreJan 22, 2025

Pipeline release! nf-core/pixelator v1.4.0 - nf-core/pixelator v1.4.0!

Please see the changelog: https://github.com/nf-core/pixelator/releases/tag/1.4.0

#molecularpixelation #pixelator #pixelgentechnologies #proteins #singlecell #singlecellomics #nfcore #openscience #nextflow #bioinformatics

Release nf-core/pixelator v1.4.0 · nf-core/pixelator

What's Changed Important! Template update for nf-core/tools v3.0.2 by @nf-core-bot in #111 Add graph refinement options for pixelator 0.19 by @fbdtemme in #112 Fix validation issues after nf-core/...

GitHub
SIB Swiss BioinformaticsFeb 7, 2024
Need to integrate #SingleCellOmics datasets? This new paper by SIB's @Carmona et al.
introduces STACAS, a flexible framework to reduce batch effect in #scrna_seq data by taking advantage of prior cell type knowledge https://www.nature.com/articles/s41467-024-45240-z
Semi-supervised integration of single-cell transcriptomics data - Nature Communications

Batch effects hinder multi-sample single-cell data analyses. Here, authors present STACAS, a scalable single-cell RNA-seq data integration tool that uses prior cell type knowledge to preserve biological variability, demonstrating robustness to noisy input cell type labels.

Nature
Show threadFerran CardosoDec 7, 2023

And here we are now! Not only the paper co-authored by @QinX_4762 but also another one from my colleague Maria Ramos have been published in the current Cell issue!

#stemcell #SingleCellOmics #colorectalcancer #bioinformatics #organoids #cell #accademichatter #openresearch

https://www.cell.com/cell/fulltext/S0092-8674(23)01221-7

SIB Swiss BioinformaticsNov 15, 2023

🔎#SIBWebsiteTour - How does our national #bioinformatics network strengthen the international visibility of #Switzerland? Find out on our new page:
👉 https://tinyurl.com/28ywh5s8

👩‍💻 👨‍💻 800 members incl. 190 employees and 28 partner institutions

Some examples of the initiatives bringing this network to life:
🎯 Focus groups on #Epigenomics #SingleCellOmics
🌱 Environmental & Diversity working groups #sustainability #EDI
👥 Community-built conferences

Our national bioinformatics network

SIB's network of research and service groups is an important component of the institute’s mission. By fostering collaboration, knowledge sharing and scientific excellence, SIB stimulates progress an...