alex jaffe
@alexjaf.bsky.social
(marine) microbial ecology + evolution | stanford postdoc | he/him/his
prepare yourself for stanford-branded everything (towels, blankets, etc.. ) π
and feel free to drop a line when you're on campus!
and feel free to drop a line when you're on campus!
January 28, 2026 at 11:24 PM
prepare yourself for stanford-branded everything (towels, blankets, etc.. ) π
and feel free to drop a line when you're on campus!
and feel free to drop a line when you're on campus!
are you on university business? this is comfortable enough and was around that per diem when i stayed there last year
rde.stanford.edu/stanford-gue...
rde.stanford.edu/stanford-gue...
January 28, 2026 at 10:22 PM
are you on university business? this is comfortable enough and was around that per diem when i stayed there last year
rde.stanford.edu/stanford-gue...
rde.stanford.edu/stanford-gue...
if you want to do it the french way, try entrees - plats - dessert :) enjoy paris and the pasteur!
January 19, 2026 at 5:55 PM
if you want to do it the french way, try entrees - plats - dessert :) enjoy paris and the pasteur!
michael, i understand the draw of external postdoc funding at this time, but i do wonder if this is the kind of organization to be boosting - it could be argued that their reactionary, alarmist politics play right into us admin efforts to defund universities under the pretext of 'antisemitism'...
January 15, 2026 at 8:17 PM
michael, i understand the draw of external postdoc funding at this time, but i do wonder if this is the kind of organization to be boosting - it could be argued that their reactionary, alarmist politics play right into us admin efforts to defund universities under the pretext of 'antisemitism'...
an essential complement to our work out last year specifically focusing on organisms with rubisco across this same transect, as well as more globally (icymi)
bsky.app/profile/alex...
bsky.app/profile/alex...
January 14, 2026 at 9:36 PM
an essential complement to our work out last year specifically focusing on organisms with rubisco across this same transect, as well as more globally (icymi)
bsky.app/profile/alex...
bsky.app/profile/alex...
π¨ preprint day for a thorough investigation of the genetic potential for chemoautotrophy in the deep northeastern pacific, led by @cometkid001.bsky.social in the @annedekas.bsky.social lab
Substantial genetic potential for deep-sea chemoautotrophy extends beyond nitrifiers https://www.biorxiv.org/content/10.64898/2026.01.13.699260v1
January 14, 2026 at 9:34 PM
π¨ preprint day for a thorough investigation of the genetic potential for chemoautotrophy in the deep northeastern pacific, led by @cometkid001.bsky.social in the @annedekas.bsky.social lab
have you been able to determine what predicts pore count on start? age/temp/ randomness from manufacturing?
January 13, 2026 at 4:04 PM
have you been able to determine what predicts pore count on start? age/temp/ randomness from manufacturing?
Reposted by alex jaffe
Troubleshooting common errors in assemblies of long-read metagenomes www.nature.com/articles/s41... #jcampubs
Troubleshooting common errors in assemblies of long-read metagenomes - Nature Biotechnology
Long-read sequence assemblies from metagenomes contain frequent errors.
www.nature.com
January 2, 2026 at 8:30 PM
Troubleshooting common errors in assemblies of long-read metagenomes www.nature.com/articles/s41... #jcampubs
so yeahβ¦ undo all of that β¦
December 24, 2025 at 1:40 AM
so yeahβ¦ undo all of that β¦
being transphobic on linkedin is so insane! odds you come across them socially with your friend/ their spouse? sounds like you might have another chance to address in person, if you want it..
December 20, 2025 at 7:59 PM
being transphobic on linkedin is so insane! odds you come across them socially with your friend/ their spouse? sounds like you might have another chance to address in person, if you want it..
Reposted by alex jaffe
If you are interested in this work and are looking for a postdoc position, please get in touch -- we are actively looking for someone to join our group at UCLA!
December 17, 2025 at 6:53 PM
If you are interested in this work and are looking for a postdoc position, please get in touch -- we are actively looking for someone to join our group at UCLA!
this is what iβm concerned about
in bioinformatics, working but subtly wrong is a potential nightmare come paper writing time
in bioinformatics, working but subtly wrong is a potential nightmare come paper writing time
December 16, 2025 at 6:37 AM
this is what iβm concerned about
in bioinformatics, working but subtly wrong is a potential nightmare come paper writing time
in bioinformatics, working but subtly wrong is a potential nightmare come paper writing time
i get that, but is there ever a 'good time' in the admin's eyes to negotiate over much needed wage increases? i've never heard of one...
December 10, 2025 at 1:15 AM
i get that, but is there ever a 'good time' in the admin's eyes to negotiate over much needed wage increases? i've never heard of one...
even if this is true, its not clear to me that some diversion of labor to AI is a greater harm than withholding living wages to the students...
December 10, 2025 at 12:45 AM
even if this is true, its not clear to me that some diversion of labor to AI is a greater harm than withholding living wages to the students...
great news! how can non-faculty support your efforts?
December 1, 2025 at 8:44 PM
great news! how can non-faculty support your efforts?
Reposted by alex jaffe
Are you a postdoc or 4-5th year grad student working on any problem in environmental microbiology and are interested in giving a virtual seminar (via zoom) on your hard work to a crowd of interested researchers at Montana State's Thermal Biology Institute in spring? Email/DM me!
December 1, 2025 at 7:58 PM
Are you a postdoc or 4-5th year grad student working on any problem in environmental microbiology and are interested in giving a virtual seminar (via zoom) on your hard work to a crowd of interested researchers at Montana State's Thermal Biology Institute in spring? Email/DM me!
typical use case, just interested in seeing a few more of the abundant lineages .
November 25, 2025 at 3:32 AM
typical use case, just interested in seeing a few more of the abundant lineages .
yes, though i understand you run into color palette limits at a certain point β¦
November 24, 2025 at 3:31 PM
yes, though i understand you run into color palette limits at a certain point β¦
hey ben, thanks for notifying us of the new version! any plans to allow the user to modulate the number of lineages 'colored in' in appraise plots? is that possible already?
November 24, 2025 at 3:57 AM
hey ben, thanks for notifying us of the new version! any plans to allow the user to modulate the number of lineages 'colored in' in appraise plots? is that possible already?
these are good but fairly pricey! eatmamahuhu.com/collections/...
Potstickers
Classic Chinese-American, thoughtful ingredients. Find our gluten free frozen potstickers in grocery stores around the Bay Area.
eatmamahuhu.com
November 12, 2025 at 9:03 PM
these are good but fairly pricey! eatmamahuhu.com/collections/...
excited to see this one with @leahtaylorkearney.bsky.social @prywes.bsky.social et al. out, bringing a truly interdisciplinary (comparative genomics/phylogeny + biochemistry) lens to our favorite enzyme rubisco
Diversity-driven biochemical survey reveals dimeric structural origin of rubisco https://www.biorxiv.org/content/10.1101/2025.11.05.686826v1
November 7, 2025 at 8:05 PM
excited to see this one with @leahtaylorkearney.bsky.social @prywes.bsky.social et al. out, bringing a truly interdisciplinary (comparative genomics/phylogeny + biochemistry) lens to our favorite enzyme rubisco
congrats - and great to see some more rhodopsins characterized from the CPR!
October 16, 2025 at 6:52 PM
congrats - and great to see some more rhodopsins characterized from the CPR!
while i AM looking forward to (someday) trivially assembling single contig MAGs from long-read data... picking out coherent contig clusters in #anvio will always be very satisfying!
September 24, 2025 at 5:06 AM
while i AM looking forward to (someday) trivially assembling single contig MAGs from long-read data... picking out coherent contig clusters in #anvio will always be very satisfying!
thanks for flagging.
September 22, 2025 at 4:32 PM
thanks for flagging.