Gennady Gorin
@goringennady.bsky.social
🦠🧬📊bioinformatics, statistics, and stochastic processes.
Tech Innovation from Google (An Alphabet Company), Powered By AI one assumes
November 12, 2025 at 12:36 AM
Tech Innovation from Google (An Alphabet Company), Powered By AI one assumes
My information sources are that my Facebook feed was, for a period of three months, saturated with emetic Far Side upscales. Sometimes it's about direct experience rather than theory.
(Preserved at www.reddit.com/r/FarSideCom...)
(Preserved at www.reddit.com/r/FarSideCom...)
October 30, 2025 at 2:35 AM
My information sources are that my Facebook feed was, for a period of three months, saturated with emetic Far Side upscales. Sometimes it's about direct experience rather than theory.
(Preserved at www.reddit.com/r/FarSideCom...)
(Preserved at www.reddit.com/r/FarSideCom...)
I have found the candles
October 28, 2025 at 1:45 AM
I have found the candles
sperm is stored in the female visceral fat, of course, everybody knows this
September 26, 2025 at 12:15 AM
sperm is stored in the female visceral fat, of course, everybody knows this
gaming is when you press circle
September 25, 2025 at 3:10 AM
gaming is when you press circle
@elisabethbik.bsky.social could be literally anything generated from any cohort using any technology, any genome, and any aligner; incredible stuff
July 26, 2025 at 11:33 PM
@elisabethbik.bsky.social could be literally anything generated from any cohort using any technology, any genome, and any aligner; incredible stuff
for deseq2 with 803 vs 3? sure why not
July 26, 2025 at 1:01 AM
for deseq2 with 803 vs 3? sure why not
2. Treating cells as independent experimental units is OK because everybody does it, and even if we don't, the conclusions still stand (at least for Penk).
I do not think pseudobulk is the best possible approach (nor do I think this particular flavor of pseudobulk is great). But there are many
I do not think pseudobulk is the best possible approach (nor do I think this particular flavor of pseudobulk is great). But there are many
June 4, 2025 at 11:44 PM
2. Treating cells as independent experimental units is OK because everybody does it, and even if we don't, the conclusions still stand (at least for Penk).
I do not think pseudobulk is the best possible approach (nor do I think this particular flavor of pseudobulk is great). But there are many
I do not think pseudobulk is the best possible approach (nor do I think this particular flavor of pseudobulk is great). But there are many
Speaking of rank-based methods: this is kind of a funny reference, because (5) says Wilcoxon is okay but risky for marker genes but bad for DGE.
June 4, 2025 at 11:44 PM
Speaking of rank-based methods: this is kind of a funny reference, because (5) says Wilcoxon is okay but risky for marker genes but bad for DGE.
Sometimes this nonindependence matters, sometime it doesn't. It seems to be less important for rank-based methods. But those are low-power and do not really take advantage of the data.
June 4, 2025 at 11:44 PM
Sometimes this nonindependence matters, sometime it doesn't. It seems to be less important for rank-based methods. But those are low-power and do not really take advantage of the data.
It does not take a lot of work to confirm (by drawing random variates from the NB) that yes, the DESeq2 filter (or a simpler implementation, throwing out low-expression genes) is independent (preserves the p-value distribution) and the fold change procedure is not. Here be dragons.
June 4, 2025 at 11:44 PM
It does not take a lot of work to confirm (by drawing random variates from the NB) that yes, the DESeq2 filter (or a simpler implementation, throwing out low-expression genes) is independent (preserves the p-value distribution) and the fold change procedure is not. Here be dragons.
mitochondrial function, stress response, apoptosis, and autophagy experts, is this right
June 3, 2025 at 5:05 AM
mitochondrial function, stress response, apoptosis, and autophagy experts, is this right
May 25, 2025 at 9:17 PM
May 25, 2025 at 9:17 PM
featuring truly spectacular* human- and machine-generated p-values for a n=6 comparison
*not mathematically impossible, since it's based on a null hypothesis, but it does raise some eyebrows
*not mathematically impossible, since it's based on a null hypothesis, but it does raise some eyebrows
May 22, 2025 at 7:08 AM
featuring truly spectacular* human- and machine-generated p-values for a n=6 comparison
*not mathematically impossible, since it's based on a null hypothesis, but it does raise some eyebrows
*not mathematically impossible, since it's based on a null hypothesis, but it does raise some eyebrows
u want to copy an em dash from the Google search results instead of remembering the Konami Code that pastes it in Windows? Sorry buddy best I can do is not that. also u can't select part of a word anymore
May 22, 2025 at 12:36 AM
u want to copy an em dash from the Google search results instead of remembering the Konami Code that pastes it in Windows? Sorry buddy best I can do is not that. also u can't select part of a word anymore
what is the take-away from this figure?
May 7, 2025 at 2:10 AM
what is the take-away from this figure?
We can certainly constrain a system to make it less underspecified. But why this choice? What is the reasoning?
May 7, 2025 at 2:10 AM
We can certainly constrain a system to make it less underspecified. But why this choice? What is the reasoning?
This is a continuous model. How well does it apply in the discrete regime, where most counts are zero or (rarely) one?
May 7, 2025 at 2:10 AM
This is a continuous model. How well does it apply in the discrete regime, where most counts are zero or (rarely) one?
what is the mechanism of "drop-outs"?
May 7, 2025 at 2:10 AM
what is the mechanism of "drop-outs"?