What is DNA Sequencing? | Matt Gray is Trying: Genetics

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I tried to understand the meaning of life. …and by that I mean how to sequence DNA
Matt Gray | mattg.co.uk | @MattGrayYes
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📄 Credits 📄
Series Producer/Director: Cambria Bailey-Jones
Camera Operator / Editor: Jamie MacLeod | www.jamiemacle...
Sound Design: Dan Pugsley | www.cassinisou...
Captions: Jacob Salas | caption.plus
Executive Producer: Guy Larsen
A Matt Gray & Penny4 Production www.penny4.co.uk
Special thanks to the team at The Francis Crick Institute: Clare Green, Maria Rodriguez and Ashley Fowler. You can find out more about the Hello Brain exhibition here: www.crick.ac.u...
Attribution:
03:57 - © www.myupchar.com / Wikimedia Commons
04:00 - © Mstyslav Chernov/mstyslav.com / Wikimedia Commons
04:03 - © Claude Truong-Ngoc / Wikimedia Commons
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Hi, I'm Matt Gray. You may know me from my work with Tom Scott, The Technical Difficulties, or even as a broadcast engineer working in radio.

Опубликовано:

9 сен 2024

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Комментарии : 165

@MattGrayYES 2 месяца назад

What would you say is the meaning of life?

@boozytortoise 2 месяца назад

@friney23 2 месяца назад

@nbmrbluesky3688 2 месяца назад

@ConnerADavis 2 месяца назад

It's actually 43. Deep Thought had an uncaught off-by-one error.

@shellturner6857 2 месяца назад

@MicroBlogganism 2 месяца назад

For anyone wondering, yes, giving your expensive lab equipment silly pop-culture names is very common

@sundhaug92 2 месяца назад

One of the treadmills aboard the ISS is called the Combined Operational Load-Bearing External Resistance Treadmill, or COLBERT for short

@LevsOnTheBevs 2 месяца назад

I've seen microbiology cabinets named after big bang theory characters...

@hammerth1421 2 месяца назад

And if things suck, they're sometimes given derogatory names as well.

@KX36 2 месяца назад

I used to work in a lab with 3 old overworked analysers that were always breaking down. They were called Ted, Jack and Dougal.

@AdamMansbridge 2 месяца назад

You've got to have a naming scheme

@pileofstuff 2 месяца назад

Matt out standing in a field while thanking the people who are outstanding in their field...🤣

@whyamiwastingmytimeonthis 2 месяца назад

I’d be VERY disappointed if the car he drives is not matte gray

@titanlim8303 2 месяца назад

@@whyamiwastingmytimeonthis The MattMobile (as seen in Breaking The News on Tom Scott's channel) was blue unfortunately

@whyamiwastingmytimeonthis 2 месяца назад

@@titanlim8303 NOOOOO

@BrowncoatInABox 2 месяца назад

@@titanlim8303 like, what are the odds of him still having that car lol

@TheHuesSciTech 2 месяца назад

That Novaseq 6000 machine (the big one) is even more impressive when put in historical context. The Human Genome Project was a landmark scientific achievement to sequence a complete human genome. It took over a decade, running from 1990 to 2003, and cost about 3 billion dollars. That's just for one human genome. The Novaseq 6000 can over a dozen Human Genome Projects in a single weekend session.

@JoshWright396 2 месяца назад

The "pause and explain" mechanic is so simple, but so effective

@winkletter 2 месяца назад

If only they had sequenced Matt's DNA we could have found the source of giggliness.

@singerofsongs468 2 месяца назад

I love the guitars-as-meters graphic at 4:41. All of these little touches of user-friendliness and personality make this series so special!

@jacquelineliu2641 2 месяца назад

r/AnythingButMetric

@althejazzman 2 месяца назад

I checked this against my actual guitars and it's surprisingly consistent. I never knew!

@sundhaug92 2 месяца назад

If RNA sounds familiar after COVID, a lot of the major vaccines against COVID basically came with RNA that said "hey, make this spike protein", and the spike-protein is something your body can later recognize (as long as it's the right type of SARS-nCoV-2 for the vaccine)

@FlamingMonocle 2 месяца назад

Matt, I genuinely hope your 'Matt is Trying' series blows up in popularity as it well deserves. I am not particularly financially well-endowed, but you can bet I'm telling everyone I know about it. I particularly enjoyed your road painting ep recently. Long may your trying times continue!

@SamuelGeist 2 месяца назад

Likewise! I've shared this with my friends and family as Matt's style and enthusiasm is sure to be a hit there as well. :)

@sundhaug92 2 месяца назад

Re the flu, part of the reason they need DNA-sequencing is that you need to know which strain of flu is coming, and predict it what's gonna be needed in x months when vaccines etc can be ready, and it can show the family-history of the sample

@LevsOnTheBevs 2 месяца назад

Phylogenetics and molecular epidemiology is so vital to outbreaks- I'm more bacterial now but either way looking at SNP changes over time!

@CoolAsFreya 2 месяца назад

Another interesting thing about gene sequencing not mentioned in this video, the machines sequence chunks of DNA of arbitrary lengths, but the way they assemble the chunks together by looking for overlapping parts is challenging and fascinating!

@gljames24 2 месяца назад

I took a CS course and that problem is quite literally NP Hard in complexity. One of the strategies is called the smallest common superstring which is like trying to solve a puzzle with redundant, but overlapping pieces.

@madaian369 2 месяца назад

Can you imagine how scifi this all would've been just a few decades ago? Like there's a DNA sequencer that fits in your pocket!

@KX36 2 месяца назад

Just 2 decades ago the human genome project was a worldwide effort that took researchers all over the world 16 years to collaboratively sequence the human genome using quite manual techniques, Sanger sequencers, a lot of gel elecrophoresis and toxic chemicals. Now it takes 2 days and costs about £1000 to sequence a human genome.

@diribigal 2 месяца назад

Mandatory GATTACA reference

@Spiteflavoredsprite 2 месяца назад

I want to also thank you for going through the extra effort of hiring someone to caption the video, as someone with an audio processing disorder it made for a much easier and smoother watch and helped me understand this fascinating subject in an easier way

@itskdog 2 месяца назад

After Tom's rant, he'd kinda be in an awkward place if he didn't, but I'm sure he also does it legitimately as well - he seems too genuine in his reactions to do it just because of the expectation.

@MsBlulucky 2 месяца назад

Little mistake at 2:55 : RNA contains U (uracil) instead of T (tyrosine)

@idk01123 2 месяца назад

How the hell has the algorithm not picked up your videos yet? This is incredible.

@juliajean6731 2 месяца назад

I love the "Out standing in their field" joke X)

@KX36 2 месяца назад

field

@juliajean6731 2 месяца назад

@@KX36 thank you X). English isn't my forst language

@smugly6793 2 месяца назад

I’m always impressed by your ability to just….end up in really cool places I understand it takes lots of planning and communication, but I enjoy thinking of it as just stumbling into a lab and getting the press treatment

@tumbledryshoes 2 месяца назад

Buffy the Genome Sequencer 🤣 Such a cool video! It's amazing when the real thing outdoes the sci-fi renditions.

@ben0329 2 месяца назад

The graphics explaining everything are so well designed!

@JohnRunyon 2 месяца назад

😂 i took a class in college named "cellular and molecular biology", i wasn't expecting to learn how to sequence DNA, but i did and it was fun (We didn't have robots to do it for us though)

@c222 2 месяца назад

I worked at a genetic sequencing company that used Illumina machines. Alongside scientists with impressive PhDs, I helped build the analytics software that took the GACATGCAGTC and turned it into more understandable information. Every ~40 hours the sequencers would produce Terabytes of data and the lab technicians that kept them running were invaluable.

@janmcclure6239 2 месяца назад

Your team is so good at explaining technical topics

@Arithryka 8 дней назад

the oxford nanopore tech is WILD! I'm absolutely floored by the fact that it's able to detect a change in voltage for each base.

@PinkSupervisor 2 месяца назад

Man, that production value.

@SamuelH2020 2 месяца назад

A Matt Gray a day keeps the existential thoughts at bay!

@jurriendevries 2 месяца назад

"What is really cool..." is everything there! Holy moly!

@evan 2 месяца назад

Matt Grey deserves 100k subs right this instant. This was so swish in quality

@LevsOnTheBevs 2 месяца назад

We do this super routinely! I've just finished my masters using DNA sequencing to detect convergence between multi drug resistance and virulence in a specific bacteria (resistance to antibiotics and how scary/damaging the thing is, basically). We got samples from Sudan, and working on the DNA let me see that the both types of scary genes are present in one sample- not good but hopeful for the future! I've also in the past had to send off samples for sequencing just to check if things I've done have worked or not. The Crick is very cool and while my PhD isn't going to be there I'm sure I'll be working with some scientists from there at some point!

@Divig 2 месяца назад

Matt, you are really good at explaining complicated things in a simple manner.

@MudakTheMultiplier 2 месяца назад

You remade that stock photo for the thumbnail and i love it.

@peter_smyth 2 месяца назад

It's cool to see Matt enthusiastically geeking out about my day job.

@inquries 2 месяца назад

Very fun video! Especially as I do DNA Sequencing for my job, was using a Miseq today 😁 Cool to see all the different equipment and technologies

@lottievixen 2 месяца назад

thank you for subtitles! and colour coding them, didn't know youtube even supported that. continue being great and having fun Matt

@AlRoderick 2 месяца назад

This is great stuff. I remember when I was in high school back in the 1990s I was in the robotics class, we took a tour of a local pharmaceutical research company that was using robotics for sample prep. It seemed to be very early days at that time, the robots were using tools like mechanical pipettes that were intended for human hands but were adapted to be actuated by a little solenoid or air cylinder. It seems that the dedicated design of robotic tools for laboratory work has come a long way. The thing you have to understand about robotics is that they fill a void that didn't exist previously between an automated machine that mechanically performs the same task almost perfectly and very fast for years with just some maintenance but can't be changed to do anything else and the universal things like the manual tools used in a lab which can be used to make basically any setup but requires hands-on use by a technician. The small robotic production line might need to do the same job thousands of times over the course of a few months or years but it doesn't have to be scrapped. When the needs of the project change, you can reprogram it and it can perform a similar task or an entirely different one.

@redmondgurney 2 месяца назад

This is so well produced and well explained, I need you explaining all complicated concepts

@_Mute_ 2 месяца назад

I would like to congratulate you on the achievement of creating and publishing the best thumbnail of 2024. Hats off

@fat_vegan_slim 2 месяца назад

I was literally just thinking about when your next video would come out, and bang! Notification!! Loving watching your "adult work experience" ❤

@andrewwmitchell 2 месяца назад

Thanks, Matt. As always your enthusiasim is infectious. This one was absolutely fascinating.

@zelrex4657 2 месяца назад

That handheld version reminded me of some gadget they would have in startrek. And to think it was not that long ago that we sequenced the first human genome

@hammerth1421 2 месяца назад

I literally study chemistry with a specialisation in biochemistry and still, Matt beat me to actually sequencing DNA myself! It's kinda fun to see the devices on video that do the things I've spent lecture after lecture learning about though. Flow cells, ddNPs with fluorescent markers, nanopore sequencing...

@AroMaths 2 месяца назад

As a microbiologist, it always amazes me, to see all of those machines where we send samples to be sequenced. Even after using them myself, it is still unreal to think what science has achieved in the last 50 years. 😊 And even if you only compare what methods there are for sequencing, from Sanger sequencing to Illumina Solexa and rather new techniques like Oxford Nanopore. Lovely!

@AroMaths 2 месяца назад

I got to say, I love your videos but this hit my heart differently 🥰

@obansrinathan 2 месяца назад

There appears to be an error in the figure at 11:54. She stated that all the colours are added at once, but each molecule of dna only has one attach each time, but the figure shows all greens added with them fitting all over the molecule. As a complementary strand of dna is made, the new nucleotides(the little bits that make up dna) have to attach to both their pair as well as a neighbor that already is attached. Thid way of sequencing DNA takes advantage of this, so a load of all four nucleotides modified to be coloured and not able to have another nucleotide attached after them are mixed in so the growing strand gets one nucleotide longer and is now the right colour. Then a photograph is taken, and the slide is treated to get rid of the colour and make it so that the nucleotide that was just added(and has now had the colour removed) can now have a new nucleotide attached after it. Then the process is repeated.

@0xTJ 2 месяца назад

I didn't have the slightest idea how DNA sequencing works, and wow, it's even cooler than I expected! I also can't help but wishing that I could use that robot arm to make my coffee and breakfast.

@idk01123 2 месяца назад

You talk about people outstanding in their field while standing out in a field. Excellent.

@cemace90 2 месяца назад

The meaning of my life is my family and friends but I think, on an individual level, it is unique to each person.

@actuallyneon 2 месяца назад

I like how Matt is wearing a "Swifts" t-shirt while the eras tour is ongoing

@abigailcooling6604 2 месяца назад

Woah, didn't expect that tiny pocket-sized sequencer to appear. It does the same job as the big ones but its so *small* 🤯🤯🤯!?

@gljames24 2 месяца назад

During a CS course I had to prove a problem was NP hard complexity and there was one actually relevant to gene mapping. It is called the smallest common superstring. Essentially it was for finding the smallest sequence given a bunch of fragments which is what you end up with when you break apart the genome and have multiple copies of the same section.

@Spiteflavoredsprite 2 месяца назад

Loving the editing in this, and the explanations are very clear and accessible! Great video and really interesting subject

@heyitsgwen 2 месяца назад

thank you matt I now understand the meaning of life

@SPUDog 2 месяца назад

The animations are so well done, I love them

@pistonsjem 2 месяца назад

First time seeing different colored captions thats great

@l.n.4929 2 месяца назад

My brain likes the descriptions and systematic You are here-references. I like the rest od the video as well.

@autumn_west 2 месяца назад

Matt, your excitement at so many things is infectious! I love it

@Onio_Saiyan 2 месяца назад

42?

@uzetaab 2 месяца назад

I'm really enjoying this channel. I hope it continues to grow.

@that_teegor 2 месяца назад

Matt how is it that your awesomely well produced videos are not blowing up more??

@nex 2 месяца назад

Oh dear, I accidentally scrolled past this yesterday because I mistook if for the Matt Gray Is Trying video from March from the same place. But earlier I saw your post on Mastodon and that set me straight ^_^

@Oivaras 2 месяца назад

It's amazing how you get into all these fascinating labs, really futuristic stuff, awesome.

@danjoseph9857 2 месяца назад

"Out standing in their field" 😂

@0utOfSkill 2 месяца назад

Great video! I really hope you find a way to make this series financially viable :)

@jagg88 2 месяца назад

Love the experts in their field while in a field

@MrStupidPantsEv 2 месяца назад

I enjoy you posting these Matt. Thanks for doing them

@_Piers_ 2 месяца назад

That was great Matt. Not the sort of place people normally get to go to, well done! :)

@devinholland2189 2 месяца назад

How on earth did you jump from making ice cream to DNA sequencing. This is the most eclectic channel, bells on im here for it.

@DAveShillito 2 месяца назад

10:05 Outstanding in their field 💜

@tbrooke3016 2 месяца назад

My science teacher taught us to remember the base pairs (AT-CG) with the acronym All Terror***s Carry Guns

@freespam9236 2 месяца назад

no PacBio machine? what a lame lab j/k but on real note - really cool lab with it's robot arms to reduce the "move stuff" work

@kleinesren7064 2 месяца назад

brilliant! Thank you for such a good video

@toamastar 2 месяца назад

very fascinating!! :)

@607 2 месяца назад

4:11 THAT SCREENSAVER (it wouldn't work too well as an actual screensaver, though...)

@BrakeForLoop 2 месяца назад

That's so cool!

@opaqueentity 2 месяца назад

Great video :) Is funny that I knew exactly where he was before he said

@MartinAhlman 2 месяца назад

"I'll take the blue ones, and you'll take the blue ones, and Matt will bein prison befoooooooore me!"

@arjovenzia 2 месяца назад

It's funny, science n engineering folk can be extremely superstitious. It's a bit like every ship needs a name, and it's very poor form and bad luck not to be named. In my electronic engineering workshop, we had a selection of adhesive googly eyes that was an integral part of the commissioning process. Very serious conversations were had in the lunch room about what their name aught to be, almost like when the family gets a new puppy. My personal favourite was Steve, a wire cutting/stripping/crimping machine, whose eyes were mounted on the knife head. Once you got all the perameters dialed in you could really crank up the speed of it, he'd chew through thousands of meters of wire with all the enthusiasm of Cookie Monster after 5 shots of espresso, eyes goggling wildly, bits of plastic and copper pinging off wildly. My least favourite was Gary, our CNC glueing machine. His eyes were on the glue dispensing head, whose eyes spasamed every time he barfed out a gob of goo, like your mate who drank to much and is puking his guts out into a convenient bush on the walk home. Which is fine, but he was very fussy to get set up, constantly getting blocked n showing nonsense error messages, or barfing toxic goo in all the wrong places. There was a little measuring stick by the nozzle to help you set up the height correctly, which somebody added a tounge mad of red electrical tape. Really sold the image of being violently sick everywhere.

@vacronda 2 месяца назад

Another Matt video!!

@PeloresanterOctagenarima 2 месяца назад

You've got a great style!

@Thawney 2 месяца назад

another delightful video :)))

@nivalshade 2 месяца назад

For the algorithm, to pick this video and share it with more people.

@devttyUSB0 2 месяца назад

Thanks! Very interesting video!!

@cemace90 2 месяца назад

This is awesome!

@funtaril 2 месяца назад

What a time to be alive

@althejazzman 2 месяца назад

10:12 Where can I buy the t shirt off the cats wearing space helmets?

@Mergatroid 2 месяца назад

Happy pride month from one enby to another!

@eeveepro9171 2 месяца назад

The answer is simple 42

@MalcolmParsons Месяц назад

1:54 DNA is a double helix, not a spiral.

@andrerenault 2 месяца назад

Amazing video as always! I’m curious what the % error or confidence on these tests are, anyone know?

@LevsOnTheBevs 2 месяца назад

Depending on the type- for this one (illumina) you have multiple short reads which increases accuracy so it can be around 99.9% (higher read depth means more accuracy), but it struggles with reading repetitive areas for example. Others like nanopore are better at repetitive and structural stuff but have lower accuracy- ideally you do both! Source- just got a first class masters in biomedical science and going to do a PhD in microbiology later this year!

@FelineBlender 2 месяца назад

Base calling errors are more likely further into the reads, at least with illumina technology. Certain strands within a cluster on the flowcell will slip one base ahead or behind where they should be and you're getting blue signal or no signal where you should be getting green. Since each cluster should be monoclonal and sending out the same signal for each SBS cycle this causes a muddying of the signal that we call 'cloud collapse'. The latest versions generally still have less than a 1% error rate at the end of a paired end run. That then gets boosted by coverage depth, or how many different times any given region will have been read after all the different clusters are analyzed. 30X depth is pretty typical, so you are extremely likely to get the true answer.

@davetreadwell 2 месяца назад

MATT! Where did you get your teeshirt that you were wearing when you were out-standing in your field?

@pandaman144. 2 месяца назад

wait, y'mean its not 42? im shocked! shocked i say!

@derbazi257 2 месяца назад

Buffy and Angel is just so bored-stem-people stuff ^^

@b33thr33kay 2 месяца назад

How small is the resolution of those cameras that can distinguish one nucleotide from the next in the sequence?? Or are they using some image processing tricks to "fake" this super resolution?

@obansrinathan 2 месяца назад

Matt slightly misunderstood how the sequencer worked, but essentially each DNA molecule only has one colourful nucleotide attached at a time, so it only needs to be able to resolve which DNA molecule is glowing rather than where on that molecule its glowing. Further the colour will be something that fluoresces quite brightly, making it easier. The resolution will have to be enough that different attachment sites will have distinct glowing bits. There will of course still be some image processing to extract the data and then loads of data analysis to actually get the sequences.

@evlli2342 2 месяца назад

okay but how do you reassemble all the segments o.o i recollect it being a lot of statistical matrix multiplication to guess where it belongs but I only helped run the HPC Clusters and never looked at the algorithms back when I worked for a large university.