When Biology Meets Computer Science

Anne Carpenter, a computational biologist and senior director of the Imaging Platform of the Broad Institute of MIT and Harvard, brings the power of machine learning to researchers seeking answers in mountains of cell images. She developed CellProfiler, a widely used open-source software for measuring phenotypes (sets of observable traits) from cell images. It has been cited in more than 12,000 publications since its release in 2005.
Read more at Quanta: www.quantamaga...
Quanta Magazine is an editorially independent publication supported by the Simons Foundation.

[@QuantaScienceChannel]

Read the full interview with Anne Carpenter at _Quanta Magazine_ : www.quantamagazine.org/anne-carpenters-ai-tools-pull-insights-from-cell-images-20211102

[@منوعاتيوتيوب-ك6ش]

We ask physicists to use graphics computers to explain The ten theories related to string theory (such as F-theory and super gravity and D-brane theory and M2-brane and M5-brane and NS5-brane and Phenomenology and Matrix theory and AdS/CFT correspondence and mirror symmetry ) in order to provide visual explanations about the functions of theories in the emergence of universes and states of energy and matter in the universe and black holes (We ask physicists to use artists to create animations to provide visual explanations about the functions of these ten theories in the genesis of the universe and black holes) Please send these requests to physicists and publish explanation videos translated into Arabic on KZbin

[@yungbloodas3789]

It is a well known law of the universe, that after a scientist says "mitochondria." They must follow up with these words, "The powerhouse of the cell." Jokes aside thank you very much for the educational video.

[@mattheweleazar8025]

string = input(“What is the well known law of the universe?”) counter = 0 while counter == 0: if string == ‘mitochondria’ or ‘Mitochondria’: print(string, ”is the powerhouse of the cell.” counter = 1 else: print(“You must know what the law is. Try again.”)

[@TinyFoxTom]

I want to see a science teacher have a stroke when a student asks, "What's a powerhouse?"

[@thespeedyyoshi]

@@mattheweleazar8025hahahaha clever

[@vitorsoutoneves4812]

That is great! I graduated med school in 2019 and on the next Saturday I'll begin a bootcamp in data science. It feels great to listen to a person with a somewhat similar path.

[@maruf7956]

why did you go from med to tech bootcamp?

[@kevinh9110]

Boot camps are overpriced and don't offer much value for the expense

[@larryfisherman6449]

This channel is severely underrated, never in a 1000 years would I find myself watching videos like this but now it’s all I watch

[@nano7586]

My brother is an absolute pro in image analysis. He studied physics, went into biology at EMBL and ended doing image analysis with zebra fish (cells). I also had enough luck to do automated image segmentation of E. coli cells, which in my former group is aimed to be automated. I used a neural net to generate some cool features that could then be used to quantify certain phenotype traits and expression levels of proteins.

[@savagesarethebest7251]

I have always had an interest in Biology but I have been working with computers all my life because of ease of access and I have a great aptitude with it. But the last few years I have really been into learning myself more about Biology and have even an idea for a business. I have no formal education, but I am a learner by heart

[@john-paulong8012]

Im the opposite! I’ve always had an interest in computers, how they work, run, and the capabilities of programming and coding but I know jack all about it. I’ve done tertiary education on biology though :/

[@Gabrielowns321]

I'm so excited to be studying this stuff, imagine the future of bioinformatics :o

[@ultramanbadman3618]

She didn't miss the part that mitochondria is the powerhouse of the cells. Kudos to her research by the way!

[@bezdaknebomizera]

I totally agree that the multidisciplinary research centers can come with great results. I am personally student of cybernetics on the University of West Bohemia in Pilsen (CZ) and a research center NTIS located on the university is a complex of IT offices, electrotechnical laboratiories and a biological laboratory. And people from different fields often work together on same projects.

[@shauryakansal1081]

wow, I'm super impressed. thanks! Anne is great inspiration

[@yugen3968]

"Mitochodria - power house of the cell..." Yeah I knew that. I'm somewhat of a Biology meets Computer Science myself.

[@UserName-ii1ce]

Im majoring in CS because I want to work in computational biology like this

[@wintur2856]

Same !!!!

[@pulungnanang]

When you said that there are psychosis related to mitochondria it really blew my mind.

[@sharifullahdanish4480]

Being a computer science student, I wish her success.

[@sayoksarkar1106]

Finally, I found someone with similar interests. 😊

[@TheYahmez]

Knowing what you're looking for seems a step closer than many others. Good luck on your quest guy. 😌 🙏

[@shyonikachatterjee7466]

This is so inspiring!

[@alfredoramos1450]

Thank you Dr. for your hard work

[@Christian-xg9gc]

Identifying psychosis via the structure of their cells sounds far more like correlation rather than causation. While furthermore, how does one if the structure of the cell is the cause or the symptom.

[@aymanahmed7686]

Anne Carpenter is my hero

[@F4mwp]

Amazing to hear about possible solutions for mental health illnesses!!!🎉🎉🎉🎉 please keep going

[@0x404-w5w]

+1 for the mitochondria meme reference

[@aditi2643]

The same with me, but for me I wanna study like all these together, bio and chemistry not in med but like food, energy, cosmetic kinda sector with CS and business...

[@MaxWaldron]

Evidently, there is much to be gained via research into mitochondrial dysfunction. A promising field of research indeed!

[@lorimillim9131]

Interdisciplinary study is the only way forward now in any direction in any domain

[@moby1kanob]

automation will get you hooked every time

[@jimmyjonestodd2556]

In situ vs in vitro, cool premise but working with cells isolated on a dish vs in a dynamic system is very different.

[@theekshanabandara9293]

Really inspiring!

[@Biped]

You're saying it like it's not a big deal but you CAN IDENTIFY MENTAL ILLNESS THROUGH SKIN CELLS? That has huge implications! Incredible.

[@-johnny-deep-]

Of course, it is not necessarily true that everyone with an abnormal mitochondrial distribution in some of their skin cells has a mental illness, nor even that everyone with a mental illness - even a particular type - has an abnormal mitochondrial distribution in some of their skin cells. A *lot* more research would have to be done.

[@VigilantnotMilitant]

Eureka! My calipers tell us the shape of a skull tells us everything we need to know about mental illness, race, gender, and intelligence! /s

[@rujotheone]

This is crazy

[@sohelbashar6925]

One could argue She is more of like making use of computer science tools to study Biology, rather than actually doing computer science. Coding /programming is an activity /tool. Computer science is an academic discipline like physics or Maths (which is rooted in maths). A lot of Computer Scientists never even write a single line of code, many are Mathematicias. Software Engineering is a different thing from Computer Science. It is just an application like Mechanical engineering vs Physics Now if you use NMR /xray crystallography in biology, you're not doing physics, rather using tools of physics to study Biology. That is why i hate when she says she made transition to computer science. If she was actually developing some mathematical modeling or algorithms for biological study then you could say sshe was doing computer science Using a software that software engineers already made is not really doing computer science

[@Milkshakman]

2:25 “Hmmm… yes I believe it is a human skull.”

[@RenatoRegalado]

i love how a phd in biology can't help herself and says "the powerhouse of the cell" whenever she says mitochondria as well :D

[@muthuk]

Awesome finding 👏

[@sitrakaforler8696]

I love both too and this woman rocks !

[@Jaye1993]

This is definitely a game changer

[@o-wolf]

I'm such a cynic that after beaming from ear to ear at how amazing this was.. I immediately recognised 5 different dystopian ways this could be misused &started feeling depressed🤦🏾‍♂️

[@benmcreynolds8581]

This is awesome!!!

[@vijaysubramanian2037]

Wow this is cool!

[@amish613]

Awesome.

[@rubyred186]

I am currently doing a training in identification and annotating breast cancer cells from the tissue samples if the patients to feed the AI how to identify the various cancer cells in a tissue culture. My mind is so hay-wired to that, that when she was showing the microscopic images at 2:06 , I subconsciously identified a very early stage cancer cell in it.. 😂😂

[@cynthiabinder3730]

Thank you for works there is abnormalities.... eat,sleep,exercise avoid trouble. Got it finally a real answer for real people and purpose 🙏 🙌 💯 ✨ 😌

[@Bluedragon2513]

Yo, this seems pretty cool. Maybe I should think about going into this

[@EnchWraits]

When the magi done?

[@Chandan-pv6qn]

Psychosis patients have disordered mitochondria. But only treating the symptoms is it also going to treat psychosis ?

[@DrAnneCarpenter]

We have no idea, you are right to be skeptical! There are many steps: for example, first: find potential drugs that can reverse this cell phenotype, and second: see whether such a chemical can treat symptoms in the whole organism (and if so, in what subset of patients). Drug discovery is not simple or straightforward (and usually fails!) so we have to celebrate the promising results when they come.

[@bradhilton2283]

That’s awesome!

[@eastafrika728]

Biology has always been a logic energy science, it has kinetic and potential energy, only liquid based.

[@primodernious]

we need to rethink the idea of software computation automaton robotics in sense of biology and the orientation of charge to attractand and reppelants in molecular bindings to that of computational logic thinking of the binding and unbinding as that of logic instrucitons that is also engine or drives computaiton as well. think of electricity as quantized computaitons between bindings forming and bindings broken. when we look at how electrons behave when molecules forms or breaks we would see in arangement of such behvior quantized electric potentials that behave as electrical switches that can be read as as a simular structure to that of computer code or robotic operations from a music box.

[@danielwiczew]

The title is heavily misleading. There's nothing about CS and not much about biology.

[@deadbzeus]

It's algorithmic image analysis of cellular images, I mean how is the title misleading?

[@sohelbashar6925]

@@deadbzeus because she is just writing a script rather than developing any algorithms..using tools made by others is not computer science Its like using xray crystallography and saying your doing physics

[@VigilantnotMilitant]

This Week In Machine Learning if you're interested in critical interviews about applying computer science techniques to biology. Science journalism must foster scientific debate, infuse ethics and dissenting views, validate the vaporware, puncture the press release, and integrate narrow lab work into broader pro-social lenses: sociological, anthropological, economic, political, etc. This uncritical interview functions as an ad for a lab and a career. Copy paste press release journalism harms the scientific process.

[@cahns5025]

I agree

[@adonistopofmen2571]

great .....

[@ukpoetry]

Spoiler : Schrödinger's cat. If your dataset isn't > 0.5Billion you are looking at background noise.

[@shemjosephejk5824]

I am big biology fan

[@ahmadayaz2004]

Love you

[@Party50361]

Great

[@noor0757]

Someone tells me this is Bioinformatics engineer ?

[@ryanaiden]

MITOCHONDRIA ARE really cool…

[@youshaaaaaa]

كان فيني كمبيوتر بيولوجي .. لما دخت راهت الاهلاسات كلها ... وودعوني كان التواصل هني لدرجة كنت حس اني عم احكي مع حالي ... وحتى للترغيب بالزواج ببنت مسؤول معينة ... واذا رفضت جعل الضحية يرغب بالانتخار بارسال رسائل ذهنية للشخص ... المستهدف ... رح اعرف مين عمل هاد الشي ورح اقتله ... وحد هويتو بواسطة osint ... وحتى بوسائل كغلقة المصدر .. تنويه :: رئيس شعبة الاستخبارات العكسرية السورية فيه كمبيوتر بيولوجي كمان .. لاني سمعتن بواسطة اهلاسات عم يسألو وينو رئيس الاستخبارات العسكرية ... بيهمن امره ..

[@davidsweeney111]

Isn’t this just bioinformatics?

[@UserName-ii1ce]

There hasn't been too much in the way of machine learning and cell imaging yet. The imaging part is what's big

[@callmeterry5371]

Real life Caitlyn Snow 😮

[@cynthiabinder3730]

Forgot the computer 🖥 😑 😐 alittle help from the machine 😅

[@kapilpoudel8452]

But why can't computer science meet biology?

[@borgir6368]

getting into CS from other discipline is quite easy than doing vice versa

[@TundeBot]

@@borgir6368 if that was the case then why does computational bio programs only care about your cs background and can care less about your bio background lmao?

[@sohelbashar6925]

@@borgir6368 really? Its rather learning how to program is easy Most bio students wouldn’t even dare to get into core fields of AI, Theoretical Computer Science ( which is basically pure maths) . They don't have mathematical skills and these fields at core are extremely mathematical with probably much much more abstract concepts than in Biology probs. Its like how physicists can invade Biology but the opposite switch is rare because mathematical concepts are arguably said to be harder to gain Programming =\= computer science These people just use libraries built already without actually having to deal with core mathematics (which would be a Very tough ask)

[@GP-qb9hi]

wow, this is still very "stone age" O_o

[@pomegranate6221]

All praise to Jesus.!💞

[@ev.c6]

She created a script for the microscope and calls it computer science? lol

[@ts-wo6pp]

she said that's what got her into the realm of computer science. no need to be an as$hole.

[@sohelbashar6925]

Exactly Total bs. More like programming would been more suitable If she dived bit into maths, logic and built some algorithms maybe then you could label it computer science

[@ev..]

Anne's excessive body language makes me feel awkward and she seems often close to giggling.

[@orendubin3392]

In hell?

[@rohitchat5538]

Apocalyptic catastrophy

[@briannabennett6301]

The giddy eagle nally smile because deal july continue but a sore brain. wet, noiseless minute

[@SineEyed]

Ok but please just be careful if you're given funding by a company that may or may not be a proxy for the NIH, which directs you to focus your research on what may or may not be an infectious desease capable of initiating a world wide pandemic. That may or may not have worked ouyt so great for us in recent past..

[@hisholiness4537]

That's biotechnology

[@isoindia2061]

First viewer

[@isoindia2061]

First viewer