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stenl

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A Quest into the Human Brain

science.org
1 points·by stenl·3 năm trước·0 comments

A comprehensive census of brain cell types

science.org
1 points·by stenl·3 năm trước·1 comments

comments

stenl
·3 tháng trước·discuss
My group published a cell atlas of the developing human brain in 2023, giving gene expression in single cells from postconception week 5 to 13. It’s on github: https://github.com/linnarsson-lab/developing-human-brain

The NIH BRAIN initiative is working on the next generation of that, covering more timepoints and better spatial data.
stenl
·9 tháng trước·discuss
He was not head of state when the crime was committed and he is not head of state now.
stenl
·12 tháng trước·discuss
If, like me, you wanted to see the actual farthest distance photo, here it is: https://beyondrange.wordpress.com/
stenl
·năm ngoái·discuss
The average federal tax rate is 14%, and the USAID budget was about 0.8% of the federal budget, so you’ve been paying about a 0.1% tax to fund USAID.
stenl
·năm ngoái·discuss
A much more detailed and thoughtful (and peer reviewed) take on the same question from my colleague Jussi Taipale: https://www.embopress.org/doi/full/10.15252/embj.201696114
stenl
·2 năm trước·discuss
Cool! Has anything similar been attempted in tumor tissue, given the many claims of microbes in tumors? Especially tumors not in contact with the exterior.
stenl
·2 năm trước·discuss
And further down: ” Contributions

J.J. and D.H. led the research. J.J., R.E., A. Pritzel, M.F., O.R., R.B., A. Potapenko, S.A.A.K., B.R.-P., J.A., M.P., T. Berghammer and O.V. developed the neural network architecture and training. T.G., A.Ž., K.T., R.B., A.B., R.E., A.J.B., A.C., S.N., R.J., D.R., M.Z. and S.B. developed the data, analytics and inference systems. D.H., K.K., P.K., C.M. and E.C. managed the research. T.G. led the technical platform. P.K., A.W.S., K.K., O.V., D.S., S.P. and T. Back contributed technical advice and ideas. M.S. created the BFD genomics database and provided technical assistance on HHBlits. D.H., R.E., A.W.S. and K.K. conceived the AlphaFold project. J.J., R.E. and A.W.S. conceived the end-to-end approach. J.J., A. Pritzel, O.R., A. Potapenko, R.E., M.F., T.G., K.T., C.M. and D.H. wrote the paper.”
stenl
·2 năm trước·discuss
These cells won’t divide because they will fail to replicate their DNA due to the lack of thymidine. The use case is cell therapies, where you give the patient cells grown in the lab but you don’t want those cells to potentially divide and cause cancer. For example, CAR T therapy to treat cancer, or dopaminergic neuron replacement therapy for Parkinson’s disease.
stenl
·2 năm trước·discuss
TERT activation is one of the most common alterations causing cancer. In fact, the whole point of the normally very low TERT expression in somatic cells is likely to be cancer prevention. It’s the mechanism behind the Hayflick limit, which puts a bound on the max number of divisions a cell can go through, via telomere shortening. Without such a limit, you get cancer. I highly doubt it will make you live longer.
stenl
·2 năm trước·discuss
Freezing and thawing organoids is not new, it’s fairly routine. The frozen piece of brain from an epilepsy patient doesn’t retain ”normal function”. There is no evidence in the paper that it integrates into neuronal circuits (this was not even tested), or supports anything like normal neuronal firing. The cells are alive, yes, and likely highly abnormally perturbed.
stenl
·2 năm trước·discuss
”The Emperor of all Maladies” by Siddhartha Mukherjee is fantastic
stenl
·3 năm trước·discuss
Related: Dijkstra, ”Why numbering should start at zero”

https://www.cs.utexas.edu/users/EWD/transcriptions/EWD08xx/E...
stenl
·3 năm trước·discuss
No that would be amazing. But we don’t have the technology to map all the connections in large mammalian brains. It was done in the fruitfly just this year: https://www.science.org/doi/10.1126/science.add9330
stenl
·3 năm trước·discuss
None, that was done 100 years ago, e.g. by Ramon y Cajal (Nobel prize 1906). But microscopic detail does not give molecular detail. What these current studies add is data on gene expression (mRNA molecules), chromatin accessibility (related to gene regulation), electrophysiology (in some cases), etc. We need such detail to connect disease genes inferred from genetics to specific brain cell types, for example.
stenl
·3 năm trước·discuss
Papers are paywalled but most can be found on bioRxiv, e.g. https://www.biorxiv.org/content/10.1101/2022.10.12.511898v1
stenl
·3 năm trước·discuss
That’s not a terrible summary of the one paper, but there are 20 more papers. An overview by the Science editor: https://www.science.org/doi/full/10.1126/science.adl0913

The full collection of papers is linked here: https://news.ycombinator.com/item?id=37878935

They are paywalled, but most are available as preprints on bioRxiv, e.g. https://www.biorxiv.org/content/10.1101/2022.10.12.511898v1