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teiflab.bsky.social
Teif lab
@teiflab.bsky.social
2.8K followers 970 following 290 posts
Teif lab at the University of Essex. We work on gene regulation in chromatin and applications to liquid biopsies, using approaches of genomics, biophysics and bioinformatics. Our focus is nucleosomics, TF binding, CTCF, cfDNA. https://generegulation.org
generegulation.org
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sproullab.bsky.social
Duncan Sproul @sproullab.bsky.social · 23h
Sequencing advice sought:
Anyone have any experience of Element AVITI sequencing for methylation profiling by WGBS or EM-sequencing?
Useful to know what other people's experience is as local facility have one and cheaper than Illumina for short read sequencing.
Please share 🙏
#epigenetics
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Reposted by Teif lab
jmschreiber91.bsky.social
Jacob Schreiber @jmschreiber91.bsky.social · 1d
Now that I'm settled in at @umasschan.bsky.social, I'm hiring at all levels: grad students, post-docs, and software engineers/bioinformaticians!

The goal of my lab is to understand the regulatory role of every nucleotide in our genomes and how this changes across every cell in our bodies.
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 1d
The actual distributions from MNase-seq, cfDNA or similar, usually also do not show visible 10-bp quantization. E.g. in Shtumpf et al 2024 we included (at the link below) distributions per chromosome and per patient. They do not have 10-bp quantization onlinelibrary.wiley.com/action/downl...
onlinelibrary.wiley.com
teiflab.bsky.social
Teif lab @teiflab.bsky.social · 1d
This is consistent with our observations, where in many cases statistically significant (and biologically informative) differences that occur between different states are just about 1-2bp or few bps that do not round to 5 (e.g. figure below from Piroeva et al., 2023) genome.cshlp.org/content/33/1...
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 1d
When NRL is defined as a single genome-average value, it is usually not expected to be quantized. For example, this distribution of linker sizes from Voong et al, 2006 shows 10-bp quantization of preferred sizes, but the average of this distribution is expected to be a non-quantized value.
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 2d
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 2d
IT as a whole may be moved just about 100% up on this graph, but a sub-sector devoted to AI moved about 1000% up, so it might be interesting to repeat that earnings vs valuations analysis specifically for AI companies.
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 4d
Interesting paper from Gernot Längst & Co. They calculated nucleosome repeat length in Plasmodium falciparum, the malaria-causing parasite, and showed that it follows a smooth continuous function of time (the numbers on the X axis below are hours post-invasion) www.biorxiv.org/content/10.1...
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Reposted by Teif lab
mspivakov.bsky.social
Mikhail Spivakov @mspivakov.bsky.social · 5d
Many enhancers that drive tissue-specific gene expression are already connected to gene promoters in human pluripotent cells.

In a new preprint, we share some clues about when, how, and why this happens!

www.biorxiv.org/content/10.1...
Poising and connectivity of emergent human developmental enhancers in the transition from naive to primed pluripotency
In primed human pluripotent stem cells (hPSCs) resembling post-implantation epiblast, numerous lineage-specific enhancers assume the poised chromatin state, co-marked by H3K4me1 and Polycomb-associate...
www.biorxiv.org
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 5d
your link is from 2017, it just shows that already back then antisemitism was quote bad, but obviously it got significantly worse since then (based on many types of statistics, so there is nothing to dispute here, it's a fact)
teiflab.bsky.social
Teif lab @teiflab.bsky.social · 5d
Jews need to be protected from antisemitism. Why is it a "political agenda"
teiflab.bsky.social
Teif lab @teiflab.bsky.social · 5d
Well, television is definitely contributing to antisemitism as you said
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 5d
A very simple answer is that there is nothing specific about UK regarding these marches, they happen also in many countries which are not allied with Israel and are even more antisemitic in nature. I have to work, so I stop this discussion here.
teiflab.bsky.social
Teif lab @teiflab.bsky.social · 5d
The marches, the traditional media, the social media - all of this contributed to antisemitism. The events happening in a distant part of the world are well separated in space and time from what's happening on the ground in the UK
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 5d
Yes, i can state this confidently (based on personal experience and statistics). Close to zero rusophobia in the UK. A lot of antisemitism though
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 5d
The fact is that if you compare these two wars (and these are just two examoles), there is no rusophobia in the UK (which is a good thing), and no major attempts inciting rusophobia. But antisemitism is growing and is visibly incited in all kinds of media
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 5d
Israel is at war with many countries in the ME region, and alltogether, the number of people from these countries living in the UK is orders of magnitude larger than from Ukraine.
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 5d
I think it's simpler than that. The population of Ukrainians in the UK is just too small for these kind of marches, and Ukraine is also less in the top news in the UK
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 5d
I am not an expert on historical or military questions, so my opinion on the ME situation is irrelevant. But I do see and feel what happens in the UK regsrding antisemitism, first hand, so here my opinion is relevant.
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 5d
You have the right to have your opinion about any war, whether it's in Israel, Ukraine, etc. The fact is that there are no multimillion marches that insight rusophobia, for example, and there have been no major terrorism attacks linked to the Ukraine war in the UK. But antisemitism is real.
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 5d
I think it's irrelevant to the subject as this is in another part of the world. The fact is, all of these online an in person events im the UK and the traditional media like BBC etc are directly to blame for the increasing antisemitism.
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 5d
The position is that the increased antisemitism which includes but not limited to the Manchester attack has been directly orchestrated by the media and other events including the marches
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 5d
Nothing unexpected. UN by its structure contains many countries that are at war with Israel, so any votes there just reflect this simple fact. The game of numbers like this is meaningless
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 5d
As written above, any entity or person can do it, intentionally or unintentionally. And because Jews (or any other minority like LGBTQ) are much smaller in numbers than the rest of population, the argument of the large numbers of people in the marches, or on social media is not making it any better
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teiflab.bsky.social
Teif lab @teiflab.bsky.social · 5d
Any entity or person who is doing it is effectively inciting violence. This is how it worked in the long history of antisemitism over millennia
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