Matthew Croxen
@mcroxen.bsky.social
public health 🦠 genomics | associate professor | personal account (opinions my own) | 🎸⚽📷♨️🥷 he/him. 🇨🇦 ✊🏿✊🏾✊🏽.
My sense is to maybe check out canu. I don't know how well any polisher would be with a ploidy > 1 though.
September 18, 2025 at 3:23 AM
My sense is to maybe check out canu. I don't know how well any polisher would be with a ploidy > 1 though.
Would think flye with long-read and polish using short-read with pypolca. Granted I don't know how complex your genome is, but I've had good success with 8 chr fungi (albeit haploid).
September 18, 2025 at 3:02 AM
Would think flye with long-read and polish using short-read with pypolca. Granted I don't know how complex your genome is, but I've had good success with 8 chr fungi (albeit haploid).
T7 is short enough that they can be designed at the 5' end of an oligo
April 25, 2025 at 2:23 PM
T7 is short enough that they can be designed at the 5' end of an oligo
I think it's a good idea, otherwise you are liking driving overexpression of downstream genes, or their antisense RNA (which may prevent translation). Or could mess up plasmid stability if it's replication is based on RNA like ColE1
April 25, 2025 at 1:31 PM
I think it's a good idea, otherwise you are liking driving overexpression of downstream genes, or their antisense RNA (which may prevent translation). Or could mess up plasmid stability if it's replication is based on RNA like ColE1
T7 terminator or rrnB T1T2 I used to use frequently
April 25, 2025 at 1:15 PM
T7 terminator or rrnB T1T2 I used to use frequently
Are these optimized promoter sequences for strong constitutive expression? Perhaps you don't need as much product made, and can use a less efficient sequence?
Conversely clone into a lower copy number plasmid?
Transcriptional terminators may help.
Conversely clone into a lower copy number plasmid?
Transcriptional terminators may help.
April 25, 2025 at 1:12 PM
Are these optimized promoter sequences for strong constitutive expression? Perhaps you don't need as much product made, and can use a less efficient sequence?
Conversely clone into a lower copy number plasmid?
Transcriptional terminators may help.
Conversely clone into a lower copy number plasmid?
Transcriptional terminators may help.
Reposted by Matthew Croxen
Mathew effect
“…early funding success introduces a growing rift, with winners just above the funding threshold accumulating more than twice as much research funding (€180,000) during the following eight years as nonwinners just below it.”
www.pnas.org/doi/10.1073/...
“…early funding success introduces a growing rift, with winners just above the funding threshold accumulating more than twice as much research funding (€180,000) during the following eight years as nonwinners just below it.”
www.pnas.org/doi/10.1073/...
The Matthew effect in science funding | PNAS
A classic thesis is that scientific achievement exhibits a “Matthew effect”: Scientists
who have previously been successful are more likely to succ...
www.pnas.org
January 17, 2025 at 2:44 AM
Mathew effect
“…early funding success introduces a growing rift, with winners just above the funding threshold accumulating more than twice as much research funding (€180,000) during the following eight years as nonwinners just below it.”
www.pnas.org/doi/10.1073/...
“…early funding success introduces a growing rift, with winners just above the funding threshold accumulating more than twice as much research funding (€180,000) during the following eight years as nonwinners just below it.”
www.pnas.org/doi/10.1073/...
