iiinova — where your digital self keeps evolving

Reposted by Alessandro Vannini

Sebastiano Pasqualato @spasqualato.bsky.social · 20/11/2024

. @zawarshah.bsky.social and @nikklena.bsky.social killing it at the Milan Joint Structural Biology Lab Meeting! Great afternoon gathering the Attu bio community in #uniMI Amazing showcase of @humantechnopole.bsky.social science from @alessandrovannini.bsky.social and @gaiapigino.bsky.social lab

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Reposted by Alessandro Vannini

Matthew Freeman @mjafreeman.bsky.social · 19/11/2024

BlueSky has undergone a Cambrian explosion in the last week! >20M users today: I can’t keep up with all the starter packs I will continue to repost those I see...complete with collective nouns But no pretence of being comprehensive 1/2

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Oliver Harschnitz @harschnitz.bsky.social · 20/11/2024

For anything stem cell and pluripotency-related: go.bsky.app/UTW4d7b

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Teif lab @teiflab.bsky.social · 16/11/2024

Interesting new method to map nucleosomes in 3D, "Proximity Copy Paste (PCP)". www.biorxiv.org/content/10.1... ▶️ mapped connectivity of nucleosomes in S. cerevisiae ▶️ chromatin is predominantly organized into regularly spaced nucleosome arrays ▶️ metaphase chromosomes packed by arrayed cohesin hubs

PCP maps 3D genome organization at the nucleosome level.
(a) Schematic of the PCP reaction on chromatin. Crosslinked chromatin is digested into nucleosomes by Caspase Activated DNAse (CAD) and then immobilized onto magnetic beads. Digested chromatin is ligated by seed and receptor molecules to the ratio of 1/10. The PCP reaction takes place on the beads where RNA tags will diffuse from the seeds and tag nearby receptors. The chromatin is then decrosslinked, the proteins and RNA removed, and a sequencing library generated by PCR. Molecules sharing the same UMI are grouped. Tag groups can be analyzed in several ways, including individual multiway tag groups or pairwise interaction matrices. (b) Plot showing the relative frequency of receptor tagging as a function of distance from the seed, the midpoints of the tagged molecules is shown. Seeds that self-tag are excluded from this analysis. (c) Plot showing the number of reads per seed tag groups for G1 data. (d) Distance decay interaction plots of PCP (orange) and Micro-C (Costantinto et al. 2020, 15 min 23°C sample) (res = 50bp).

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Mark Peifer (He, him) @peiferlabunc.bsky.social · 14/11/2024

This is mind blowing! Sequencing DNA INSIDE single nuclei to map the 3D position of genes. I love the combination of technologies--imaging powered by expansion microscopy and state-of-the art sequencing, all underlain by good old Fred Sanger 🧪

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Karim-Jean Armache @kjarmache.bsky.social · 13/11/2024

Please see our paper in Nature on read-write mechanisms of H2AK119 ubiquitination by Polycomb repressive complex I. Congrats to the whole team, especially Victoria and huge thanks to our collaborator JP Armache! Also big thanks to Mark Foundation for Cancer Research for the support! rdcu.be/dZ5HZ

rdcu.be

Read–write mechanisms of H2A ubiquitination by Polycomb repressive complex 1

Nature - Cryo-electron microscopy and biochemical studies elucidate the read–write mechanisms of non-canonical PRC1-containing RYBP in histone H2A lysine 119 monoubiquitination and their...

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Rémi Fronzes @fronzeslab.bsky.social · 13/11/2024

FYI: I am trying to add people who post to the #cryoEM and #cryoET feeds to the CryoEM/ET starter pack.

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Alessandro Vannini @alessandrovannini.bsky.social · 13/11/2024

Let’s give this platform a good go and hopefully say goodbye 👋 to the birdie one

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