Greg Fedewa
@science.ninja
Bioinformatic Scientist interested in microbes. Former: Ismagilov Group (Caltech), Nuanced Health Inc; The Centre for Pathogen Evolution (U Cambridge, UK), DeRisi Lab (UCSF).
I've been looking for these myself. It isn't a single study, but some of the Zymo standards have been sequenced with all three.
November 11, 2025 at 10:50 PM
I've been looking for these myself. It isn't a single study, but some of the Zymo standards have been sequenced with all three.
I am very much not an expert on corals, so I could be wrong here. Bad gene calls could be the cause, but doi.org/10.1093/g3jo... says there are a lot of duplications in the genome.
Genomic comparison of the temperate coral Astrangia poculata with tropical corals yields insights into winter quiescence, innate immunity, and sexual reproduction
Abstract. Facultatively symbiotic corals provide important experimental models to explore the establishment, maintenance, and breakdown of the mutualism be
doi.org
October 24, 2025 at 4:44 PM
I am very much not an expert on corals, so I could be wrong here. Bad gene calls could be the cause, but doi.org/10.1093/g3jo... says there are a lot of duplications in the genome.
I am not an expert on TagSeq, but I have debugged a lot of sequencing before. Can you say what species it is (is the genome just repetitive)? Did you remember to deduplicate the reads based on UMIs?
October 24, 2025 at 4:09 PM
I am not an expert on TagSeq, but I have debugged a lot of sequencing before. Can you say what species it is (is the genome just repetitive)? Did you remember to deduplicate the reads based on UMIs?
Getting your ears pierced this weekend won't help dispel them
October 20, 2025 at 2:44 PM
Getting your ears pierced this weekend won't help dispel them
"I think we should have the Mobius parade. It will never stop, never start. It always was and will always be."
October 17, 2025 at 3:46 PM
"I think we should have the Mobius parade. It will never stop, never start. It always was and will always be."
I still say "Turn down your radio" to people around me.
October 16, 2025 at 3:40 AM
I still say "Turn down your radio" to people around me.
I don't understand what you mean, published articles and data should all have DOI numbers that will act as a permanent hyperlink. Books and physical things could be links to a photo attached. If someone is citing a work that can never be verified it probably isn't a good source for a college paper.
September 29, 2025 at 3:18 AM
I don't understand what you mean, published articles and data should all have DOI numbers that will act as a permanent hyperlink. Books and physical things could be links to a photo attached. If someone is citing a work that can never be verified it probably isn't a good source for a college paper.
Have you thought about requiring all sources to have hyperlinks? You shouldn't need to track anything down if the student already did
September 29, 2025 at 2:22 AM
Have you thought about requiring all sources to have hyperlinks? You shouldn't need to track anything down if the student already did
One hundred thousand people shouting "arr" preventing you from finishing your opener, The Captains Wife's Lament.
September 29, 2025 at 1:55 AM
One hundred thousand people shouting "arr" preventing you from finishing your opener, The Captains Wife's Lament.
Just a random guess, but 0.008==1/125 . Are these based on some 125 question survey?
September 16, 2025 at 2:01 AM
Just a random guess, but 0.008==1/125 . Are these based on some 125 question survey?
On point 1a, are they saying they won't require a data sharing plan? That would be such a huge step backward.
September 11, 2025 at 4:42 PM
On point 1a, are they saying they won't require a data sharing plan? That would be such a huge step backward.
It might only be a small step in the right direction, but did you see @fraserlab.com recent post about trying to fix preprint reviews (they found out the authors weren't being notified) ?
September 11, 2025 at 4:59 AM
It might only be a small step in the right direction, but did you see @fraserlab.com recent post about trying to fix preprint reviews (they found out the authors weren't being notified) ?
That sounds like an awesome postdoc.
August 16, 2025 at 1:01 AM
That sounds like an awesome postdoc.
Verified résumés could be interesting, but I think the problem is LLMs are being used by real people, but they allow people to tailor and apply to every job they can find. I really dislike take homes as they favor people without families/outside responsibilities.
August 5, 2025 at 9:11 PM
Verified résumés could be interesting, but I think the problem is LLMs are being used by real people, but they allow people to tailor and apply to every job they can find. I really dislike take homes as they favor people without families/outside responsibilities.
I have heard this (and that a lot of them look like they are written by an LLM) from a few people, but haven't seen much news on it. If it really is just a flood of some people spamming every job opening, I wonder how that will force the whole process to change.
August 2, 2025 at 10:43 PM
I have heard this (and that a lot of them look like they are written by an LLM) from a few people, but haven't seen much news on it. If it really is just a flood of some people spamming every job opening, I wonder how that will force the whole process to change.
I am pretty sure the same thing is happening in industry too. It's brutal out here right now.
July 26, 2025 at 12:59 AM
I am pretty sure the same thing is happening in industry too. It's brutal out here right now.
This is a weird question, but what is the link to purchase your Cornell Notes vault? Everything seems to point to your website having one, but I can't find a link anywhere.
July 21, 2025 at 6:02 PM
This is a weird question, but what is the link to purchase your Cornell Notes vault? Everything seems to point to your website having one, but I can't find a link anywhere.
This is interesting because the literature has quite a few cases of saying that at least a few fungal species have a genome that can rearrange given a new environment. Things like Starships moving 100kb chunks and such.
July 1, 2025 at 7:37 PM
This is interesting because the literature has quite a few cases of saying that at least a few fungal species have a genome that can rearrange given a new environment. Things like Starships moving 100kb chunks and such.
Not sure why I didn't guess that. I guess I need to rewatch your lectures to refresh.
June 27, 2025 at 2:43 PM
Not sure why I didn't guess that. I guess I need to rewatch your lectures to refresh.