Carl Manner

Passionate about genomics, tech dev, climate change, & social justice. Avid diver. Works in urchins; dreams of corals. 🏳️‍🌈

[Carl Manner @CJManner]

@peiferlabunc Isn’t that the only point of co-first?

[Doc Edge @DocEdge85]

People say science twitter has lost its mojo, but we just main-character'd a guy for being insufficiently committed to mentoring, and it was the one guy who has a public, standing offer to be an informal advisor to literally any scientist in the world

[Carl Manner @CJManner]

@arjunrajlab Idk, if you’re using something like histone marks to define binding probability I could see that there’s a layer of abstraction there. But if you (for example) endogenously flag tag a TF, then isn’t signal above background essentially equivalent to binding?

[Prof. Eliot Jacobson @EliotJacobson]

The 7 hottest days on Earth in the last 100,000+ years all happened in the last week:

July 6 ~ 17.23°C / 63.01°F
July 7 ~ 17.20°C / 62.96°F
July 4 ~ 17.18°C / 62.93°F
July 5 ~ 17.18°C / 62.92°F
July 8 ~ 17.17°C / 62.90°F
July 10 ~ 17.12°C / 62.81°F
July 9 ~ 17.11°C / 62.79°F

[Carl Manner @CJManner]

@ATinyGreenCell Or a mobius strip alternative to Okazaki fragments for circular dsdna.

[Carl Manner @CJManner]

@ProfTomEllis Ah. How long are the longest ~10% of transcripts?

[Carl Manner @CJManner]

@AugustPamplona @davidrliu Electrocompetent is the way to go. Or zymo mix and go for subcloning efficiency.

[David R. Liu @davidrliu]

Three of the more costly and frequently used reagents in molecular biology are rolling circle amplification (RCA) mix, chemically competent MachOne (or other E. coli) cells, and Gibson assembly mix. Postdoc Julian Willis—who is starting his own lab in the UK soon—developed homemade recipes for each that reduce costs ~3x (or more at large-scale). Links to each recipe:

RCA mix:
https://t.co/Cmir57uM0J

Chemically competent MachOne cells:
https://t.co/kNYVxLIToA

Gibson assembly mix:
https://t.co/OFwXmmLDWB

[Carl Manner @CJManner]

@rhuttenhain I love benchling for molecular biology tools it has integrated, but am consistently disappointed in the relatively few reference genomes available and how outdated they are. If you’re working in human or mouse systems, it’s near perfect. If you use other models, less so.

[Carl Manner @CJManner]

@OurOcean The copy pasta is coming soon, right?

[Anshul Kundaje @anshulkundaje]

This recent talk features ChromBPNet, our upcoming flagship predictive sequence model of base-resolution chromatin accessibility profiles (ATAC-seq, DNase-seq, scATAC-seq cluster pseudobulks) with built-in de-novo enzyme bias correction. 1/

[moe tkacik @moetkacik]

this was not at all depressing to write https://t.co/sP1uwk9fMj

[Carl Manner @CJManner]

@musharbash_b Tulum, Quintana Roo, MX

[Carl Manner @CJManner]

@ATinyGreenCell https://t.co/F3IZ8XfHT7

[Niko McCarty. @NikoMcCarty]

Prime editors can tweak DNA in ways that Cas9 -- and even base editors -- cannot.

Clinical trials are expected to begin by 2025.

In the last few days, three papers have pushed the method forward.🧵

[Carl Manner @CJManner]

@kearney_melissa Hot take: we should do away with traditional grading in favor of contract grading or - preferably - complete degrading (pass/fail).

[Governor Josh Stein @NC_Governor]

I will veto this extreme ban and need everyone’s help to hold it. - RC