dr-dusa.bsky.social
Dubravka Vucicevic
@dr-dusa.bsky.social
16 followers 41 following 3 posts
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dr-dusa.bsky.social
Dubravka Vucicevic @dr-dusa.bsky.social · 29d
I am so happy to share that our paperis officially published in Cell Genomics! In this paper, we describe TESLA-seq, which combines pooled CRISPR activation with targeted single-cell RNA-seq to map enhancer-gene connections at high sensitivity.

Link to the full story: www.cell.com/cell-genomic...
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Reposted by Dubravka Vucicevic
uweohler.bsky.social
Uwe Ohler @uweohler.bsky.social · Jul 14
20 year lab anniversary and local reunion last Friday!
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dr-dusa.bsky.social
Dubravka Vucicevic @dr-dusa.bsky.social · 29d
Many thanks to all co-authors, especially the bioinformatics team, Che-Wei Hsu, Lorena Sofia Lopez Zepeda and Martin Burkert as well as co-corresponding authors Scott Lacadie and Uwe Ohler. It was so much fun to work on this project together!
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dr-dusa.bsky.social
Dubravka Vucicevic @dr-dusa.bsky.social · 29d
#CRISPR #scRNAseq #genomics #TESLAseq #singlecell #genomeediting #targetedscRNAseq
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dr-dusa.bsky.social
Dubravka Vucicevic @dr-dusa.bsky.social · 29d
I am so happy to share that our paperis officially published in Cell Genomics! In this paper, we describe TESLA-seq, which combines pooled CRISPR activation with targeted single-cell RNA-seq to map enhancer-gene connections at high sensitivity.

Link to the full story: www.cell.com/cell-genomic...
1 3 8
Reposted by Dubravka Vucicevic
natbiotech.nature.com
Nature Biotechnology @natbiotech.nature.com · Jul 30
Shortcomings of silhouette in single-cell integration benchmarking - @uweohler.bsky.social @prauten.bsky.social @mdc-bimsb.bsky.social @mdc-berlin.bsky.social @humboldtuni.bsky.social go.nature.com/4fcQzZr
Shortcomings of silhouette in single-cell integration benchmarking - Nature Biotechnology
Silhouette score is unsuitable as a metric for single-cell data integration.
go.nature.com
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Reposted by Dubravka Vucicevic
prauten.bsky.social
Pia Rautenstrauch @prauten.bsky.social · Jan 24
1/4 🧵 Preprint alert: In "Metrics Matter: Why We Need to Stop Using Silhouette in #SingleCell #Benchmarking," we reveal critical flaws in common #Evaluation metrics for #Integration and propose robust alternatives. @uweohler.bsky.social
www.biorxiv.org/content/10.1...
Metrics Matter: Why We Need to Stop Using Silhouette in Single-Cell Benchmarking
Current-day single-cell studies comprise complex data sets affected by nested batch effects caused by technical and biological factors, relying on advanced integration methods. Silhouette is an establ...
www.biorxiv.org
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