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I am becoming increasingly convinced that the best part of a PhD is the summer before you start it, when you get to tell everyone you’re doing a PhD and they’re all like “oh that’s so cool” but you don’t have to actually do any of the PhD yet.

Some big news: I’m absolutely delighted to announce that I will be starting my group this fall in the Computational and Systems Biology Program at Memorial Sloan Kettering Cancer Center in New York City! clareaulab.com 1/

Systematic benchmarking of single-cell ATAC-sequencing protocols go.nature.com/3KqmUxG

hmm v enlightening info booth

Here is how the Lander Imager Camera captured the moon's image just prior to touchdown.

Impressions from GD2 CAR-T cell therapy phase I CT #osteosarcoma & #neuroblastoma cell.com/cancer-cell/fu…

ICYMI - my thrilling "whodunit" write up in The Hindu on the mysterious death of Ludwig von Beethoven, here it is, for your reading pleasure. You''ll blink your eye only after you complete this heart-racing investigation into the maestro's death, a masterclasss in Hepatology.

Congratulations to Cara Haymaker, Edwin Parra & Sacha Gnjatic on our recent article showing association of immune response and immunotherapy benefit in squamous cell lung cancer using Multi-Omics Lung-MAP Lipschultz Precision Immunology Institute Icahn School of Medicine at Mount Sinai MD Anderson Cancer Center pubmed.ncbi.nlm.nih.gov/38277235/

What a PERFFect day to share our new preprint! With Tsion Abay #BobStickels Meril Takizawa @ChaligneRonan and Ansu Satpathy, we introduce PERFF-seq, a new experimental approach to studying rare cells with scRNA-seq via transcript-specific enrichment. biorxiv.org/content/10.110… 1/n

The choice of whether to use Seurat or Scanpy for single-cell RNA-seq analysis typically comes down to a preference of R vs. Python. But do they produce the same results? In biorxiv.org/content/10.110… w/ Joseph Rich et al. we take a close look. The results are 👀 1/🧵

1/ In 1997, 20 volunteers in Buffalo, NY donated blood for what was billed as "the world's biggest science project." Little did they know, one of them would become the cornerstone of modern genetics. 🔗: undark.org/2024/07/09/inf…

On bioRxiv today, we raise serious concerns over a recent @nature paper describing ReDeeM, a new single-cell mitochondrial DNA (mtDNA) sequencing / analysis method. Here are three things that you need to know: 1/n biorxiv.org/content/10.110…

In the past, I have avoided posting such preprints. However, in this case, the authors did not budge (the key first author having no computational training) and the damage to the community from using this seriously flawed pipeline would be immense. In service to the community:

If you have an mtDNA tracing dataset, regardless of the technology or stage of the project, I will review your workflow/results/interpretation within 1 week--provided the code and data are made available in public (e.g., GitHub) and discussion also occurs on a public forum. 7/n

Excited to share the white paper for the IGVF Consortium, supported by National Human Genome Research Institute Deciphering the impact of genomic variation on function rdcu.be/dSZdm

Happy to announce that CCLONE is out on bioinformatics 🥳 Our method identifies cancer cells based on noisy & sparse SNVs called directly from scRNA-seq data. Congrats to Valérie Marot-L. Sergi Beneyto Calabuig Benedikt Obermayer @larsplus Dieter Beule Laleh Haghverdi! doi.org/10.1093/bioinf…

Our second Lab Retreat was full of science, team building and fun with some furry friends :) We are excited about new projects & ideas in the Haghverdi Lab. Stay tuned for upcoming posts and publications!

You met a German?

“It is hard to put into words the extent of the damage being done to the US research enterprise, which is of almost incalculable value to both the nation itself and the wider world… An assault on science and scientists anywhere is an assault on science and scientists