#Genomic Sequencing

[ricisidro]

BA.2.X New #Omicron lineage | via @Tuliodna, @EricTopol

https://x.com/tuliodna/status/1752996491948327126?s=46&t=i2uHiaqre0-vH8-HVYuWsw

As #SARSCoV2 continue to evolve, a new lineage has been detected in South Africa (SA) with >100 mutations (>30 on spike) and multiple deletions.

No sign of widespread, on the opposite, BA.2.86/JN.1 continue to dominate and SA is following the epidemic in many fronts with no sign of increasing cases, hospitalisation and deaths.

#biosurveillance #genomicsurveillance

[iamthekaijuking]

This just in, starfish are a radially symmetrical head with a stomach.

God I love echinoderms

If you told someone that there’s an entire group of animals that develop butt first as embryos are born bilateral but then grow a radially symmetrical head like a cancer in their side that then bursts out and lives as a completely separate organism from its birth form and moves via hydraulic systems…

They wouldn’t believe you. Yet one of the most beloved cartoon characters is one of them.

[yonker-tonker]

Arcee is like a creature to me

[mindblowingscience]

Antibiotics are a lifesaving tool. Yet, due to their chronic overuse, microbes are evolving and developing immunity against them. As a result, once-effective medications can no longer stave off infections, complicating treatment and increasing mortality. A University at Albany study recently published in the journal Nature Communications identified a new genetic mechanism that allows antimicrobial resistance to spread among lethal bacteria.

Continue Reading.

[beemovieerotica]

may i suggest davidusjoneium manumos for your bacteria name poll

a;sldkjfal;sdk okay so POTENTIALLY i could name it something really weird but i will absolutely need to have a justification to my boss for why it is named that thing. also this is fairly far off in the future / not 100% certain because i still have to do all the shit required of describing a new species

[dailycupofcreativitea]

Fun bio things

My coworker and I were fighting for our lives in the last 30 minutes before winter break (we're off at noon today) trying to hand-translate genomic sequence like we were back in second year biology so we could figure out how to merge an insertion and a deletion LOL

It was an insertion of a GG (shifts the frame +2) and a deletion of an A (shifts the frame -1) that were two separate calls, but we were trying to combine them. The insGG caused a stop codon at position 43, and the delA caused a stop codon at position 42, but the combined frameshift (+2 - 1 = +1) didn't make a stop codon, so we were like...okay then what's the new notation...

I'm pretty sure the new notation is something like fs*? (a frameshift but you have no idea when it makes a stop) but this is me digging in my brain for second year biology and even then I don't think we learned this HAHA

[o-sachi]

My friends always tell me about that one time they decided to have a drink while writing an important paper.

And I’m like, “how tf u gonna think properly and write a long ass paper then?”

But after doing it myself, i get it!

It doesn’t make me write better but it sure does make me feel less miserable 😃

[cbirt]

The sequencing and assembly of the human Y chromosome have been challenging due to its intricate repeat structure, which encompasses lengthy palindromes, tandem repeats, and segmental duplications. The existing GRCh38 reference sequence lacks over half of the Y chromosome’s content, leaving it as the final unfinished human chromosome. Addressing these limitations, the Telomere-to-Telomere (T2T) consortium introduces the full 62,460,029-base-pair sequence of the human Y chromosome from the HG002 genome (T2T-Y). This new sequence rectifies multiple errors in GRCh38-Y, supplementing the reference with over 30 million base pairs. It reveals complete ampliconic patterns of gene families like TSPY, DAZ, and RBMY, adds 41 protein-coding genes (primarily from TSPY), and unveils a distinctive alternating arrangement of human satellite 1 and 3 blocks within the heterochromatic Yq12 region. Through integration with the CHM13 genome assembly and the inclusion of population variations, clinical variants, and functional genomics data, a comprehensive reference spanning all 24 human chromosomes has been established.

The complex architecture of the human Y chromosome, with its large repeats and palindromes, plays a pivotal role in fertility. This includes hosting genes that are crucial for spermatogenesis and sex determination. Although it remains notably incomplete due to over half of its makeup being riddled with gaps in the GRCh38 human reference genome, this condition impedes comprehensive analysis of regions such as Azoospermia factors associated with infertility.

Despite these challenges, breakthroughs from the Telomere-to-Telomere (T2T) consortium have allowed researcher Adam M. Phillippy and his team to assemble the entire CHM13 cell line genome; however, they could not fully put together the Y chromosome because of its unique characteristics. The Human Pangenome Reference Consortium (HPRC) concurrently launched a project to embody a broader genomic range via the use of the HG002 genome. This endeavor successfully resulted in the reconstruction of the full sequence for the Y chromosome, known as T2T-Y.

Continue Reading

[eeleye-mcshitposts]

ONE of these fucks does NOT belong.

[everythingaboutbiotech]

Common uses of bioinformatics

💡Sequence analysis Analyzing DNA and protein sequences to identify genes, regulatory regions & mutations.

💡Gene expression Analyzing RNA expression data from experiments like microarrays or RNA-seq to understand gene regulation.

💡Phylogenetics Constructing evolutionary relationships between organisms based on genetic data and genomic comparisons.

💡Molecular modeling Predicting protein structure and docking drugs to proteins using computational modeling and simulation.

💡Databases & Data mining Developing databases like GenBank to store biological data and mining it to find patterns.

💡Genomics Studying entire genomes, including sequencing and assembling genomes as well as identifying genes and genomic variations.

Follow @everythingaboutbiotech for useful posts.

[jewishdragon]

When a computer slows down bc its processing a shit ton of sequencing data i say "gotta be patient, the computer is doing a big thinkie"

[smol-blue-bird]

I love old books about the future. Currently reading The Physics of the Future by Michio Kaku, and he keeps saying that humans will one day be able to fit their genomes on a CD-ROM

[dollelujah]

These pride advertisements are getting out of hand

[ladysqueakinpip]

the only thing my sister and i have to offer to the rise fandom is theories about how lou jitsu's dna recombined with the turtles

[shallowseeker]

Is yours the kind of chronic illness you'll recover from? You definitely don't have to answer or give personal details, but I really hope you feel better!

No, it's okay. It's likely that I won't fully recover, but in the past decade, there have been WAY more treatments available that turn down the immune system and combat scarring. And yes, I'm much better, thanks!💖 In a nutshell,

my immune system malfunctioned after an infection, and now it attacks my body in big, big ways—with a tendency to damage the muscles and lungs!

My situation got even weirder because it started attacking my nerves and heart from 2020 onward, which ... usually ppl with my diagnosis, get respiratory failure, not overt heart issues. (Long story, but I got undiagnosed, then rebiopsied, then rediagnosed the same thing *with extra notes.) Anyhoo, the new developments impacted my mobility and stamina in even crazier ways than I was used to. (I have until recently worked a full-time job and pretty much spent ~5-6 days in a gym with an expensive physical therapist just to keep my body functional. Before, I had an acquired skeletal myopathy, but I was able to run a 5k in 42 minutes... I trained like an Olympian and while had to rest a lot more than most, I could do it!)

Now... I can't even manage one day a week of light activity. It's a big adjustment, even for me! I'm having to noodle on how to best manage it going forward. It's always this confusing situation of "Is this the primary illness, secondary damage, or the side effects of toxic medications?"

I'm doing a pretty good job if I do say so myself.

[sleepysera]

"With the announcement that the Human Genome Project had mapped all of the genetic material in the human chromosomes, a new era in the understanding of genetics began. The discovery of new genes is announced every day, and it is only a matter of time before the genetic mechanisms of mood disorders is only one of the goals of work in this field. Just as important will be understanding the epigenetic mechanisms by which genes turn on and off and other mechanisms that regulate the expression and work of the instructions encoded in the DNA molecule.

The first genetic approach to pay off in changing treatment is likely to be pharmacogenomics, the field within genetics that investigates genetic factors associated with responses to particular pharmaceuticals rather than with risk of disease. The promise of pharmacogenomics is that therapeutic agents can be rationally selected, based on a person's genetic profile rather than the trial-and-error process patients must now endure. In the not-too-distant future, a blood test will show whether lithium or valproate or lamotrigine or some as yet undiscovered drug will be the best treatment for a particular individual with bipolar disorder. A blood test may be able to identify the bipolar patients who can safely take an antidepressant."

-Francis Mark Mondimore, Bipolar Disorder (2014)