@rgilsbach.bsky.social
Reposted
Check out this nice "Tools of the Trade" piece in Nature Reviews Genetics written by Ankit Agrawal on our NiCo algorithm for the analysis of single-cell spatial transcriptomics data from platforms like Xenium, MERSCOPE, seqFISH etc.
Feel free to reach out for advice.
www.nature.com/articles/s41...
Feel free to reach out for advice.
www.nature.com/articles/s41...
Decoding cell–cell communication using spatial transcriptomics - Nature Reviews Genetics
In this Tools of the Trade article, Ankit Agrawal introduces the computational framework NiCo (Niche Covariation), which integrates spatial transcriptomics with single-cell RNA-sequencing data to stud...
www.nature.com
February 21, 2025 at 3:35 PM
Check out this nice "Tools of the Trade" piece in Nature Reviews Genetics written by Ankit Agrawal on our NiCo algorithm for the analysis of single-cell spatial transcriptomics data from platforms like Xenium, MERSCOPE, seqFISH etc.
Feel free to reach out for advice.
www.nature.com/articles/s41...
Feel free to reach out for advice.
www.nature.com/articles/s41...
Reposted
Ahahahaha! I had once ridiculed the word police on the left & gotten some major flak for it on Twitter. Now, it is time to ridicule the MAGA word police 😆. Cry babies! What happened to all that macho masculinity? Words be hurting so much??
🚨BREAKING. From a program officer at the National Science Foundation, a list of keywords that can cause a grant to be pulled. I will be sharing screenshots of these keywords along with a decision tree. Please share widely. This is a crisis for academic freedom & science.
February 4, 2025 at 5:03 PM
Ahahahaha! I had once ridiculed the word police on the left & gotten some major flak for it on Twitter. Now, it is time to ridicule the MAGA word police 😆. Cry babies! What happened to all that macho masculinity? Words be hurting so much??
Reposted
Reposted
This work just out in Science Advances by Tom Sexton’s lab (to which Mariano Barbieri from our lab contributed modeling data) is a thorough demonstration of how extrusion- and transcription-centric interactions are predominantly antagonistic. Must read!
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Transcription processes compete with loop extrusion to homogenize promoter and enhancer dynamics
Gene promoters and enhancers share the same constrained mobilities during transcription, opposing cohesin-mediated loop extrusion.
www.science.org
December 14, 2024 at 9:23 AM
This work just out in Science Advances by Tom Sexton’s lab (to which Mariano Barbieri from our lab contributed modeling data) is a thorough demonstration of how extrusion- and transcription-centric interactions are predominantly antagonistic. Must read!
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Reposted
Job alert 🚨 ✨
Our lab is searching for a technical assistant/research technician 🫀 to investigate heart regeneration and repair. Heidelberg is an awesome place to do science and the quality of living is great! Please forward to anyone who may be interested and please repost to spread the word 🙏
Our lab is searching for a technical assistant/research technician 🫀 to investigate heart regeneration and repair. Heidelberg is an awesome place to do science and the quality of living is great! Please forward to anyone who may be interested and please repost to spread the word 🙏
November 28, 2024 at 10:28 AM
Job alert 🚨 ✨
Our lab is searching for a technical assistant/research technician 🫀 to investigate heart regeneration and repair. Heidelberg is an awesome place to do science and the quality of living is great! Please forward to anyone who may be interested and please repost to spread the word 🙏
Our lab is searching for a technical assistant/research technician 🫀 to investigate heart regeneration and repair. Heidelberg is an awesome place to do science and the quality of living is great! Please forward to anyone who may be interested and please repost to spread the word 🙏
Reposted
Damn that’s cool!
It's my great pleasure to present the next big preprint from SheqLab! An exciting application of our O-MAP platform that I hope will transform the study of nuclear architecture.
If you've ever wanted to dissect the subnuclear "neighborhood" around an individual locus, read on! (1/30)
If you've ever wanted to dissect the subnuclear "neighborhood" around an individual locus, read on! (1/30)
November 21, 2024 at 3:04 AM
Damn that’s cool!
Reposted
Identification of #PancreaticCancer -specific protease substrates for protease-dependent targeted delivery www.nature.com/articles/s41...
Identification of pancreatic cancer-specific protease substrates for protease-dependent targeted delivery - Oncogenesis
Oncogenesis - Identification of pancreatic cancer-specific protease substrates for protease-dependent targeted delivery
www.nature.com
November 20, 2024 at 9:16 PM
Identification of #PancreaticCancer -specific protease substrates for protease-dependent targeted delivery www.nature.com/articles/s41...
Reposted
New here and excited to share our new paper on transcriptional effectors! Interested to discuss context-specificity of gene regulation? Or how to get CRISPRi/a working in new contexts? 👋
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Development of compact transcriptional effectors using high-throughput measurements in diverse contexts - Nature Biotechnology
Improved effectors for CRISPRi/CRISPRa are developed following high-throughput screening of transcriptional domains.
www.nature.com
November 18, 2024 at 3:16 AM
New here and excited to share our new paper on transcriptional effectors! Interested to discuss context-specificity of gene regulation? Or how to get CRISPRi/a working in new contexts? 👋
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted
Excited to share our study on spatio-temporal reconstruction of cardiac scar formation led by Andy Chan. We combine scRNA-seq with spatial transcriptomics to resolve the fibrotic niche and the niche of dedifferentiating cardiomyocytes.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
November 16, 2024 at 12:26 PM
Excited to share our study on spatio-temporal reconstruction of cardiac scar formation led by Andy Chan. We combine scRNA-seq with spatial transcriptomics to resolve the fibrotic niche and the niche of dedifferentiating cardiomyocytes.
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...