#noncoding

Vishwa Rajagopalan

@vishwaas26.bsky.social

1 month ago

A recent publication from the lab. #noncoding #hfpef #aging #thyroid #heart

Stefan Barakat

@stefanbarakat.bsky.social

3 months ago

If you reached till here, and you still find this interesting: soon we will open a position for a computational scientist to continue on some of this work. Feel free to reach out, follow us and spread the news! #functionalgenomics #noncoding #enhancer #STARR-seq

@tycheleturner.bsky.social

5 months ago

Big milestone for the @TNTurnerLab as our very first postdoc officially started this week!
Welcome Arvinden to the team!
@WashUGenetics #genomics #genetics #noncoding #mpra #postdoc

@tycheleturner.bsky.social

5 months ago

Generation and Characterization of a Knockout Mouse of an Enhancer of EBF3 Genomic studies of autism and other neurodevelopmental disorders have identified several relevant protein-coding and noncoding variants. One gene with an excess of protein-coding de novo variants is E...

🐭This week the detail sheet for the enhancer knockout mouse we describe in doi.org/10.1101/2025... became available at the MMRRC www.mmrrc.org/catalog/sds..... Please check it out if you are interested in ordering the mice. #noncoding #enhancer #ebf3 #genomics #genetics @TNTurnerLab @WashUGenetics 🐭

Elfride De Baere

@elfridedebaere.bsky.social

6 months ago

👉Curious to learn more? A full article about the project is also available on the GENeHOPE website:
FR: lnkd.in/em7mh4Tc
NL: lnkd.in/ebCKUWxq
ENGL: lnkd.in/eBXfVXeK

#GENeHOPE #Genetics #Glaucoma #GeneticDiseases #noncoding #TAD #Xenopus #PrecisionMedicine

Earlham Institute

@earlhaminst.bsky.social

10 months ago

Postdoctoral Research Scientist

Applications are open for a #Postdoc Researcher to join @whaerty.bsky.social at the Earlham Institute.

As part of a HorizonEU funded consortium, you'll undertake analysis of functional implications of variation within #noncoding #sequences in relation to cardiovascular disorders.

Abhishek Garg LAB

@abhishekgarglab.bsky.social

1 year ago

Long noncoding RNA PARAL1 regulates myeloid dendritic cell differentiation and TLR signaling - Genes & Immunity Genes & Immunity - Long noncoding RNA PARAL1 regulates myeloid dendritic cell differentiation and TLR signaling

Long #noncoding #RNA PARAL1 regulates #myeloid dendritic cell #differentiation and #TLR #signaling

#Genes & #Immunity @springernature.com
www.nature.com/articles/s41...

Elfride De Baere

@elfridedebaere.bsky.social

1 year ago

My very first post on bsky on this super exciting paper from the @corbolab.bsky.social!
#conservation #regulatory #CRE #noncoding #retina

@tycheleturner.bsky.social

1 year ago

Generation and Characterization of a Knockout Mouse of an Enhancer of EBF3 Genomic studies of autism and other neurodevelopmental disorders have identified several relevant protein-coding and noncoding variants. One gene with an excess of protein-coding de novo variants is E...

Check out our new collaborative preprint “Generation and Characterization of a Knockout Mouse of an Enhancer of EBF3” on bioRxiv #genetics #ebf3 #mouse #enhancer #noncoding #genomics
www.biorxiv.org/content/10.1...

Ronald Breaker

@ronbreaker.bsky.social

1 year ago

Looking forward to publishing new findings on #riboswitch #noncoding RNAs and other strange nucleic acids in the new year. I will try to post about the most interesting advances on Bluesky.

Haobo Li, PhD

@lihaobo.bsky.social

1 year ago

THANKS
@nih_nhlbi
for this new support that enables us to work with the amazing
@rosenzweig_a
on #noncoding RNA in #aging ! Not sure how they always manage to send NOA before holidays - love it, and... there are many more holidays coming @MGHanesthesia @mghcvrc @UMichMedSchool

Das

@srdas.mastodon.online.ap.brid.gy

1 year ago

<div class="post-content"> <p>After 60 years of searching, geneticists have finally identified the gene behind the marmalade coloration in domestic cats.</p><p>Two independent teams of researchers found any fiery-hued fuzz on our <a href="https://www.sciencealert.com/cats-bond-securely-to-their-humans-maybe-even-more-than-dogs-do">beloved clawed floofs</a> is likely the result of a missing segment of DNA in a non-protein-coding part of the cat's genome.</p><!-- START single/mrec --><div class="ad-slot--container ad-slot--container-content ad-slot--container-content-1 Purch_Y_C_0_1-container"> <div class="ad-slot priad-1 ad-slot--content-1 Purch_Y_C_0_1" id="Purch_Y_C_0_1"></div> <script type="c90f7cebcac8b140ed5ab47c-text/javascript"> if ('undefined' !== typeof window.tmntag && 'undefined' !== typeof window.tmntag.cmd) { tmntag.cmd.push(function () { tmntag.adTag('Purch_Y_C_0_1', false); }); } </script> </div> <!-- END single/mrec --><p>"It's been a genetic mystery, a conundrum," Stanford University geneticist Greg Barsh <a href="https://www.science.org/content/article/gene-behind-orange-fur-cats-found-last">told</a> Sara Reardon at <em>Science</em>.</p><!-- START single/mrec --><div class="ad-slot--container ad-slot--container-content ad-slot--container-content-2 Purch_Y_C_0_2-container"> <div class="ad-slot ad-slot--content ad-slot--content-2 Purch_Y_C_0_2" id="Purch_Y_C_0_2"></div> <script type="c90f7cebcac8b140ed5ab47c-text/javascript"> if ('undefined' !== typeof window.tmntag && 'undefined' !== typeof window.tmntag.cmd) { tmntag.cmd.push(function () { tmntag.adTag('Purch_Y_C_0_2', false); }); } </script> </div> <!-- END single/mrec --><p>Barsh and his colleagues discovered cat skin cells from which orange fur sprouts express 13 times as much RNA from a gene called <em>Arhgap36</em>, compared with skin cells from cats with no orange hair.</p><!-- START single/mrec --><div class="ad-slot--container ad-slot--container-content ad-slot--container-content-3 Purch_Y_C_0_3-container"> <div class="ad-slot ad-slot--content ad-slot--content-3 Purch_Y_C_0_3" id="Purch_Y_C_0_3"></div> <script type="c90f7cebcac8b140ed5ab47c-text/javascript"> if ('undefined' !== typeof window.tmntag && 'undefined' !== typeof window.tmntag.cmd) { tmntag.cmd.push(function () { tmntag.adTag('Purch_Y_C_0_3', false); }); } </script> </div> <!-- END single/mrec --><p>Expecting to find the protein-coding section of the overproductive <em>Arhgap36</em> gene had mutated, the researchers were surprised to find it was the sequence preceding it that instead contained a deletion, presumably affecting the rest of the gene's expression.</p><!-- START single/mrec --><div class="ad-slot--container ad-slot--container-content ad-slot--container-content-4 Purch_Y_C_0_4-container"> <div class="ad-slot ad-slot--content ad-slot--content-4 Purch_Y_C_0_4" id="Purch_Y_C_0_4"></div> <script type="c90f7cebcac8b140ed5ab47c-text/javascript"> if ('undefined' !== typeof window.tmntag && 'undefined' !== typeof window.tmntag.cmd) { tmntag.cmd.push(function () { tmntag.adTag('Purch_Y_C_0_4', false); }); } </script> </div> <!-- END single/mrec --><p>The 5 <a href="https://en.wikipedia.org/wiki/Base_pair#Length_measurements">kilobase</a> deletion was present in every orange cat the researchers examined out of a database of 188 cats, which included 145 orange, 6 calico/tortoishell, and 37 nonorange cats.</p><!-- START single/mrec --><div class="ad-slot--container ad-slot--container-content ad-slot--container-content-5 Purch_Y_C_0_5-container"> <div class="ad-slot ad-slot--content ad-slot--content-5 Purch_Y_C_0_5" id="Purch_Y_C_0_5"></div> <script type="c90f7cebcac8b140ed5ab47c-text/javascript"> if ('undefined' !== typeof window.tmntag && 'undefined' !== typeof window.tmntag.cmd) { tmntag.cmd.push(function () { tmntag.adTag('Purch_Y_C_0_5', false); }); } </script> </div> <!-- END single/mrec --><p>One finding didn't come as a surprise. As long predicted, the mutated gene is located on the cat's X chromosome, explaining why the orange color appears so differently between the sexes. Most orange cats are male, while most female cats with some orange fur end up with patchworks of different colors.</p><figure aria-describedby="caption-attachment-145632" class="wp-caption alignnone" id="attachment_145632" style="width: 640px"><img alt="Red black and white calico kitten" class="wp-image-145632 size-full" decoding="async" height="700" loading="lazy" sizes="(max-width: 640px) 100vw, 640px" src="https://www.sciencealert.com/images/2024/12/RedBlackAndWhiteCalicoKitten-e1733183714509.jpg" srcset="https://www.sciencealert.com/images/2024/12/RedBlackAndWhiteCalicoKitten-e1733183714509.jpg 640w, https://www.sciencealert.com/images/2024/12/RedBlackAndWhiteCalicoKitten-e1733183714509-379x415.jpg 379w, https://www.sciencealert.com/images/2024/12/RedBlackAndWhiteCalicoKitten-e1733183714509-600x656.jpg 600w" width="640"/><figcaption class="wp-caption-text" id="caption-attachment-145632">A calico kitten. (Theresa Donahue McManus/Moment/Getty Images)</figcaption></figure><p>"Taken together, these observations provide strong genetic and genomic evidence that the 5 kb deletion causes sex-linked orange," Barsh and team <a href="https://doi.org/10.1101/2024.11.21.624608">write</a> in their paper.</p><!-- START single/mrec --><div class="ad-slot--container ad-slot--container-content ad-slot--container-content-6 Purch_Y_C_0_6-container"> <div class="ad-slot ad-slot--content ad-slot--content-6 Purch_Y_C_0_6" id="Purch_Y_C_0_6"></div> <script type="c90f7cebcac8b140ed5ab47c-text/javascript"> if ('undefined' !== typeof window.tmntag && 'undefined' !== typeof window.tmntag.cmd) { tmntag.cmd.push(function () { tmntag.adTag('Purch_Y_C_0_6', false); }); } </script> </div> <!-- END single/mrec --><p>Ever since humans first co-habitated with cats <a href="https://www.sciencealert.com/the-lost-history-of-cat-domestication-can-finally-be-told">nearly 10,000 years ago</a>, it's been a curiosity that a black cat and an orange cat can be parents to an unexpected array of kitten colors. Male kittens from this pairing are mostly either orange or black, as might be expected. But female kittens can have a calico's patchwork of black, orange and white, or a tortoiseshell's marbling of orange scattered through black fur.</p><figure aria-describedby="caption-attachment-145622" class="wp-caption alignnone" id="attachment_145622" style="width: 642px"><img alt="tortoiseshell cat with orange marbled through black fur" class="wp-image-145622 size-full" decoding="async" height="963" loading="lazy" src="https://www.sciencealert.com/images/2024/12/TortoiseshellCatWithOrangeMarblingThroughBlackFur-e1733181850151.jpg" width="642"/><figcaption class="wp-caption-text" id="caption-attachment-145622">A tortoiseshell cat. (<a href="https://unsplash.com/photos/a-close-up-of-a-cat-with-yellow-eyes-Q8EbbKgOPe0">Yosei G/Unsplash</a>)</figcaption></figure><p>Both teams confirmed the mutation responsible for orange fur is on the X chromosome, which is why such clear differences in colored patterning can appear between the sexes.</p><!-- START single/mrec --><div class="ad-slot--container ad-slot--container-content ad-slot--container-content-7 Purch_Y_C_0_7-container"> <div class="ad-slot ad-slot--content ad-slot--content-7 Purch_Y_C_0_7" id="Purch_Y_C_0_7"></div> <script type="c90f7cebcac8b140ed5ab47c-text/javascript"> if ('undefined' !== typeof window.tmntag && 'undefined' !== typeof window.tmntag.cmd) { tmntag.cmd.push(function () { tmntag.adTag('Purch_Y_C_0_7', false); }); } </script> </div> <!-- END single/mrec --><p>Unlike males that end up with just one copy of this mutation on their solitary X chromosome, females end up with two copies, one on each the X's they receive from each parent.</p><!-- START single/mrec --><div class="ad-slot--container ad-slot--container-content ad-slot--container-content-8 Purch_Y_C_0_8-container"> <div class="ad-slot ad-slot--content ad-slot--content-8 Purch_Y_C_0_8" id="Purch_Y_C_0_8"></div> <script type="c90f7cebcac8b140ed5ab47c-text/javascript"> if ('undefined' !== typeof window.tmntag && 'undefined' !== typeof window.tmntag.cmd) { tmntag.cmd.push(function () { tmntag.adTag('Purch_Y_C_0_8', false); }); } </script> </div> <!-- END single/mrec --><p>Mammals randomly inactivate one of the two X chromosomes in each of their cells to avoid expressing an excess of the chromosome's products. This leaves female orange kitties with an active orange mutation in some of their developing skin-cell tissues, right next to neighboring cells in which the X chromosome with the mutated gene is deactivated.</p><!-- START single/mrec --><div class="ad-slot--container ad-slot--container-content ad-slot--container-content-9 Purch_Y_C_0_9-container"> <div class="ad-slot ad-slot--content ad-slot--content-9 Purch_Y_C_0_9" id="Purch_Y_C_0_9"></div> <script type="c90f7cebcac8b140ed5ab47c-text/javascript"> if ('undefined' !== typeof window.tmntag && 'undefined' !== typeof window.tmntag.cmd) { tmntag.cmd.push(function () { tmntag.adTag('Purch_Y_C_0_9', false); }); } </script> </div> <!-- END single/mrec --><p>On rare occasions that both X chromosomes carry the mutation, the female grows into furry fireball as ginger as any male.</p><figure aria-describedby="caption-attachment-145629" class="wp-caption alignnone" id="attachment_145629" style="width: 642px"><img alt="It's Taken Scientists 60 Years to Identify The Gene Making Orange Cats Usually Male" class="size-full wp-image-145629" decoding="async" height="428" loading="lazy" src="https://www.sciencealert.com/images/2024/12/FieryOrangeKittenWithBlueEyes-e1733183466200.jpeg" width="642"/><figcaption class="wp-caption-text" id="caption-attachment-145629">An orange kitten. (Zelenenka/iStock/Getty Images Plus)</figcaption></figure><p>Orange cats happen to have a hilarious reputation for <a href="https://knowyourmeme.com/memes/orange-cat-behavior">not being the brightest</a> of their species. Anecdotes aside, such links between kitty coloration and cognition are scientifically unsupported, with no obvious negative consequences from this mutation in health or mental wellbeing.</p><!-- START single/mrec --><div class="ad-slot--container ad-slot--container-content ad-slot--container-content-10 Purch_Y_C_0_10-container"> <div class="ad-slot ad-slot--content ad-slot--content-10 Purch_Y_C_0_10" id="Purch_Y_C_0_10"></div> <script type="c90f7cebcac8b140ed5ab47c-text/javascript"> if ('undefined' !== typeof window.tmntag && 'undefined' !== typeof window.tmntag.cmd) { tmntag.cmd.push(function () { tmntag.adTag('Purch_Y_C_0_10', false); }); } </script> </div> <!-- END single/mrec --><p><em style="letter-spacing: -0.45px;">Arhgap36</em> is known to cause developmental problems in other animals when it is over- or under-functioning. But it seems that in orange cats, the gene is overexpressed only in developing and mature pigment cells called melanocytes.</p><!-- START single/mrec --><div class="ad-slot--container ad-slot--container-content ad-slot--container-content-11 Purch_Y_C_0_11-container"> <div class="ad-slot ad-slot--content ad-slot--content-11 Purch_Y_C_0_11" id="Purch_Y_C_0_11"></div> <script type="c90f7cebcac8b140ed5ab47c-text/javascript"> if ('undefined' !== typeof window.tmntag && 'undefined' !== typeof window.tmntag.cmd) { tmntag.cmd.push(function () { tmntag.adTag('Purch_Y_C_0_11', false); }); } </script> </div> <!-- END single/mrec --><p>"The difference between tortoiseshell and calico cats is the presence of an additional white spotting mutation in calico that affects the ability of developing melanocytes to survive as they migrate away from the neural crest, allowing melanocyte clones that do survive to expand in a larger body region," Barsh and colleagues <a href="https://doi.org/10.1101/2024.11.21.624608">explain</a>.</p><!-- START single/mrec --><div class="ad-slot--container ad-slot--container-content ad-slot--container-content-12 Purch_Y_C_0_12-container"> <div class="ad-slot ad-slot--content ad-slot--content-12 Purch_Y_C_0_12" id="Purch_Y_C_0_12"></div> <script type="c90f7cebcac8b140ed5ab47c-text/javascript"> if ('undefined' !== typeof window.tmntag && 'undefined' !== typeof window.tmntag.cmd) { tmntag.cmd.push(function () { tmntag.adTag('Purch_Y_C_0_12', false); }); } </script> </div> <!-- END single/mrec --><p>The second study, led by Kyushu University geneticist Hidehiro Toh, also identified <em>Arhgap36</em> as the orange cat fur gene. They found greater expression of this gene suppresses color pigment genes, shifting the dark brown to black <a href="https://en.wikipedia.org/wiki/Melanin#Eumelanin">eumelanin</a> pigments to the reddish to yellow <a href="https://en.wikipedia.org/wiki/Melanin#Pheomelanin">pheomelanin</a> pigments.</p><p>Both papers are now online awaiting <a class="lar_link lar_link_outgoing" data-linkid="73086" data-postid="145606" href="https://www.sciencealert.com/science-peer-review" rel="nofollow" target="_self">peer review</a> on <em>bioRxiv</em> <a href="https://doi.org/10.1101/2024.11.21.624608">here</a> and <a href="https://doi.org/10.1101/2024.11.19.624036">here</a>.</p> </div>

Fun read on new findings - also you'll find out why (all/only) orange cats are mostly male

The Secret of Orange Cats Finally Uncovered After 60-Year Search

www.sciencealert.com/the-secret-of-orange-cat...

#Science #Cats #NonCoding #DNA #Genetics

TRAstonDrs

@castltrastondrs.bsky.social

1 year ago

Tricking phages with a reverse move An antiviral gene is absent in DNA but expressed by rolling circle reverse transcription

#MedSky When infected by a #virus, some #bacteria use a #reversetranscriptase to convert a small #noncoding #RNA to a long #DNA concatemer (nearly endless ORF”) which is transcribed and then translated into a repetitive protein that shutdowns the cellular processes.
www.science.org/doi/10.1126/...

Selene FeRNAndez

@selfdz.bsky.social

7 years ago

Afternoon #noncoding #RNA and RNA regulation session starting with Mikiko Siomi talking about piRNAs-mediated transposon silencing in Drosophila. #LorneGenome

Selene FeRNAndez

@selfdz.bsky.social

7 years ago

Starting with the keynote lecture by Joan Steitz talking about #viral #noncoding #RNAs in #Herpesviridae. Making a case for viral ncRNAs as good study subjects for dissecting ncRNA functions. #LorneGenome

Selene FeRNAndez

@selfdz.bsky.social

8 years ago

Nice day back at the mother ship. Teaching about the #noncoding #genome this morning @lcgunam. Got so caught up in the discussion forgot to take a pic with the class. Here's the setup instead.

Selene FeRNAndez

@selfdz.bsky.social

8 years ago

Wrap up session starting with @asiepel on predicting deleterious variants on #noncoding genome regions. Promoting #popgen workshop this coming #January @CSHL. @CMO_oaxaca