Lightnews — Scholar-powered news

Luay Almassalha @almassalha.bsky.social · 1d

Yeah - there are, its just not something that comes up in day-to-day practice. Here are some nice reviews:
www.cell.com/current-biol...

pubmed.ncbi.nlm.nih.gov/31977294/

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Reposted by Luay Almassalha

neongrey @neongrey.bsky.social · 3d

all discourse aside, there is one machine with consciousness. it's printers. they are alive and conscious and they hate you and they'd take your arm clean off if you let them. never trust a printer.

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Reposted by Luay Almassalha

John Greally @greally.bsky.social · 6d

What an amazing assay.

DAF-seq, the evolution of Fiber-seq from the Andrew Stergachis group, using the @pacbio.bsky.social platform:
www.biorxiv.org/content/10.1...

This will revolutionise our understanding of transcriptional regulation and functional non-coding variants.

Deaminase-assisted single-molecule and single-cell chromatin fiber sequencing

Gene regulation is mediated by the co-occupancy of numerous proteins along individual chromatin fibers. However, our tools for deeply profiling how proteins co-occupy individual fibers, especially at ...

www.biorxiv.org

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Luay Almassalha @almassalha.bsky.social · 7d

Christopher Nolan movies live rent free in my head

Luay Almassalha @almassalha.bsky.social · 12d

basically covers that anatomy diagram

Luay Almassalha @almassalha.bsky.social · 12d

Everytime the chart says Billroth all I think about is LoTR

a demon with horns is surrounded by a group of people in a dark room .

ALT: a demon with horns is surrounded by a group of people in a dark room .

media.tenor.com

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Reposted by Luay Almassalha

Job Dekker @jobdekker.bsky.social · 16d

New work from my lab with the Brown lab on how genome folding changes during motor neuron maturation, and how this process goes awry in ALS motor neurons. Led by Dr. Ozgun Uyan.
www.biorxiv.org/content/10.1...

Dynamic changes in chromosome and nuclear architecture during maturation of normal and ALS C9orf72 motor neurons

We have investigated changes in chromosome conformation, nuclear organization, and transcription during differentiation and maturation of control and mutant motor neurons harboring hexanucleotide expa...

www.biorxiv.org

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Luay Almassalha @almassalha.bsky.social · 15d

I think Epic has conditioned us to not mind logging in 3 times when you have to triple verify every decision

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Luay Almassalha @almassalha.bsky.social · 20d

I don't really encounter transposable elements (or Arabidopsis) in my clinical day-to-day, but this is awesome: www.science.org/doi/10.1126/...

Transposable elements are vectors of recurrent transgenerational epigenetic inheritance

DNA methylation loss at transposable elements (TEs) can affect neighboring genes and be epigenetically inherited in plants, yet the determinants and significance of this additional system of inheritan...

www.science.org

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Reposted by Luay Almassalha

Richard Sever @richardsever.bsky.social · 21d

"AI has generated a genome for the first time" eu.36kr.com/en/p/3472136...

www.biorxiv.org/content/10.1...

World's First AI Genome Born: 3.5 Billion Years of Life Code Reprogrammed, Biology Enters "ChatGPT Moment"

Stanford AI Achieves First - Time Phage Genome Generation: 16 Phages Effectively Target Drug - Resistant Bacteria

eu.36kr.com

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Reposted by Luay Almassalha

Jan Lammerding - Lab @lammerdinglab.bsky.social · 21d

How do LMNA mutations cause dilated cardiomyopathy (DCM) and other #laminopathies? In our latest preprint (doi.org/10.1101/2024...), led by the amazing Noam Zuela-Sopilniak and Julien Morival, we show that cardiomyocyte-specific lamin A/C depletion causes severe DCM, consistent with other studies.

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Reposted by Luay Almassalha

Ewan Birney @ewanbirney.bsky.social · 25d

Bioinformaticians / computational biologists take note - know where you should take your OS tool chain from and do not introduce backdoors.

James Bonfield @jbonfield.bsky.social · 25d

Heads up: ignore samtools dot org, similarly minimap2 dot com and likely others. It's owned by a known phishing site and while the binaries they offer look valid currently (but note they may be serving us different binaries to others), that could change.

Ie: it's not us (Samtools team)! Be warned

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Reposted by Luay Almassalha

Carmelo Ferrai @carmeloferrai.bsky.social · May 13

EpiSci - Hi there! Our review “Mechanotransduction in stem cells” is finally published. With @carstenschulte4.bsky.social we provided a comprehensive picture, that aims to cover the whole mechanotransductive pathway from the cell microenvironment to the nucleus. 1/3 pubmed.ncbi.nlm.nih.gov/38729084/

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Luay Almassalha @almassalha.bsky.social · Sep 6

Back to service Monday. Can't wait to deal with GI bleeding again

a cat laying on the floor with the words finally done written on it

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media.tenor.com

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Luay Almassalha @almassalha.bsky.social · Sep 5

paper revisions irl

a man in a blue shirt and tie is pointing at a bulletin board with a lot of papers on it .

ALT: a man in a blue shirt and tie is pointing at a bulletin board with a lot of papers on it .

media.tenor.com

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Luay Almassalha @almassalha.bsky.social · Sep 5

the drosophila genome is weird

Reposted by Luay Almassalha

Jorge Ferreira @jorgeferreira.bsky.social · Sep 3

New preprint from the lab! Please check it out. 🚨
Have you ever wondered how cells decide when it’s time to divide? So did we!
www.biorxiv.org/content/10.1...

Chromosome condensation mechanically primes the nucleus for mitosis

Timely and accurate transition into mitosis is essential to preserve genome integrity and avoid chromosome segregation errors. This transition depends on spatial and temporal activity patterns of the ...

www.biorxiv.org

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Reposted by Luay Almassalha

Kazuhiro Maeshima @kazu-maeshima.bsky.social · Aug 28

🧩 Also highly relevant: a modeling study from Bin Zhang group predicts condensed euchromatin domains with active protrusions. Perfectly complementary to our findings! 3
www.biorxiv.org/content/10.1...

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Reposted by Luay Almassalha

Kazuhiro Maeshima @kazu-maeshima.bsky.social · Aug 28

Is euchromatin really “open”? Our new study @bioRxiv suggests otherwise. Using super-resolution imaging @shiori-iida.bsky.social‬ @masaashimazoe.bsky.social reveals: Euchromatin forms condensed domains in live cells. Cohesin constrains them and prevents domain mixing.
www.biorxiv.org/cgi/content/...

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Reposted by Luay Almassalha

Dr Zeinab Rekad 🔬🧬🧪 @zeinabrekad.bsky.social · Sep 1

#ChromatinSky

Kazuhiro Maeshima @kazu-maeshima.bsky.social · Aug 28

Is euchromatin really “open”? Our new study @bioRxiv suggests otherwise. Using super-resolution imaging @shiori-iida.bsky.social‬ @masaashimazoe.bsky.social reveals: Euchromatin forms condensed domains in live cells. Cohesin constrains them and prevents domain mixing.
www.biorxiv.org/cgi/content/...

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Luay Almassalha @almassalha.bsky.social · Aug 31

Hot damn, let's goooooo!!! www.biorxiv.org/content/10.1...

Cohesin prevents local mixing of condensed euchromatic domains in living human cells

The human genome is folded into chromatin loops by the cohesin complex, forming functional chromatin domains that underlie transcription and DNA replication/repair. However, the physical properties of...

www.biorxiv.org

Luay Almassalha @almassalha.bsky.social · Aug 31

I'm just really enjoying that Iris is somehow cool again, let's be honest

How a ’90s Goo Goo Dolls Hit Became the Song of the Summer

The song has been a top global hit on Spotify for most of the last three months.

www.wsj.com

Luay Almassalha @almassalha.bsky.social · Aug 31

That I'm listening to Goo Goo Dolls and coding at 10pm on a Saturday says a lot about my life choices.

Shout out to the 4DN and Encode for killer public data

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ALT: a man in a red sweater is dancing in a living room in front of a fireplace .

media.tenor.com

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Reposted by Luay Almassalha

James McInerney @jomcinerney.bsky.social · Aug 29

New preprint reveals bacteria can't just collect all resistance genes like Pokemon cards.
We found mutually exclusive evolutionary pathways to multidrug resistance in E. coli & P. aeruginosa - some resistance mechanisms actively prevent others from coexisting www.biorxiv.org/content/10.1...

Genomic constraints shape the evolution of alternative routes to drug resistance in prokaryotes

Background Variation within the prokaryotic pangenome is not random, and natural selection that favours particular combinations of genes appears to dominate over random drift. What is less clear is wh...

www.biorxiv.org

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Luay Almassalha @almassalha.bsky.social · Aug 23

That ibuprofen et al can create a bleeding crater inside you lives rent-free in my head