Staff ML scientist
@insitro
. UW ECE PhD. Interested in ML + Statistical genetics, PPML, AI ethics. Atheist. From Calcutta. Biriyani expert. Views are my own.
🧬"EmbedGEM: A framework to evaluate the utility of embeddings for genetic discovery" by
@SMukherjee89
et al. presents an innovative tool to systematically assess embeddings in
#genetic
research, focusing on heritability & disease relevance.
#genomics
@ClareMalone
You are probably a racist. As a brown man, I am really struggling to find a different way to look at this. Before I make up my mind, I will keep an eye out to see if you can provide any evidence to the contrary. But, I am deeply disappointed by your journalistic standards.
@adjmacro
@michelletandler
@elonmusk
Hi there, would love to see this research that you claim exists. Feel free to share links to the papers that support your claim. As a computational biologist, what you're claiming is news to me.
@BretWeinstein
@BernieSanders
@ArticlesOfUnity
Dude. The pandemic is starting to seriously affect your mental well being. Wtf are you talking about? There is a subtle difference between being a contrarian and tweeting on shrooms.
@adjmacro
@michelletandler
@elonmusk
Nope. This is a study on the effects of rare coding variants of some measures or cognition. It does not claim what you think it claims at all.
@lpachter
I don't think any scientifically literally person thinks he is a MIT prof. Although I am very curious how he manages to keep an active affiliation with MIT. Must help with reading papers. I want to know how to do that.
@StLouisVI
@ClareMalone
Honestly, I am a pretty happy place in my personal life and scientific career, so your comment doesn't bother me at all. I wish you the very best.
@debarghya_das
This is a problem with no recourse. You know what is a problem with some recourse? Having an adequate social safety structure in place for the elderly.
@daniela_witten
This is really unfortunate. I cannot comprehend the amount of stupidity that leads someone to say something about the looks of their potential PhD advisor.
@iandanforth
@KevinKaichuang
I actually think he does. That's the troubling part. Before he became an anti-woke activist, he was actually a pretty decent researcher in machine learning. Good enough to know that he is misrepresenting things in his blanket statements.
Some professional news: After 2.5 years at the Microsoft AI for Good team, I have decided to accept a senior ML scientist position in the statistical genetics team at
@insitro
starting December.
@StLouisVI
@ClareMalone
You seem awfully certain that she is happy. Hmm ... I'm just messing with you. Have a happy life. Do you mind if we stop this exchange? Gotta get back to my pathetic life.
@JoeAuerbach
@anishagupta_
I think 'no room to negotiate' is different from having an offer rescinded because the candidate tried to negotiate. The latter seems like it should be illegal.
@timgill924
This is precisely why people are leaving academia in droves in certain disciplines. I did this when I was in grad school but I definitely wouldn't do it again if I could re-do that part of my life.
@lslothuus
@ConradkBarwa
Very interesting. When I was in undergrad, I spent a summer in Hamburg and found people very nice. However, some of my Indian friends who spent time in smaller German towns said they had horrific experiences.
@endlesswario
Okay. I read this on reddit and haven't been able to find an actual post from ASU (which may be because I don't know where to look) but had to put this clarification here. Please don't my comment as evidence of an actual post from ASU.
@TaliaRinger
I always find it troubling when people see someone of a particular ancestry/nationality and immediately assume things about their politics, with no additional information. It's just wild. The same people can somehow see the political differences in their own country.
@BriannaWu
Honestly, Elon simply sensationalizes things that people in academia had been working on for decades. Yes, he brings resources to the table. But the fact that he can is due to the government choosing not to bring more resources to the table and instead using it to give tax breaks
I salute the courageous people of Iran who are standing up for women's rights. They deserve better. I grew up in India, where in some states there are informal morality enforcers, and even that is pretty terrible. The idea of a formal morality police just sounds awful.
So, apparently the immigration filing backlog in the Seattle USCIS office has grown so long, they are now making people drive 2.5 hrs (1 way) to Yakima for immigration appointments. On that note, I guess I am a US citizen now.
@mbeisen
@Sciencing_Bi
If she wasn't a real person, it makes a good case for why we should be careful while sharing tweets from pseudonym accounts. Particularly those of us whose endorsements carry credibility.
@AudreyTruschke
How are you so patient? Do you like meditate or something? What is your secret? How do you take so much unsolicited abuse from irrational people and then just keep interacting with them? If I were in your position, I'd probably have quit twitter years ago. Kudos to you.
@gauravsabnis
Modi is not business friendly at all. He is just monopoly friendly. Under him some Indian billionaires have become extremely rich which has in some cases trickled down to some related business. That's about it.
@pmddomingos
@AnimaAnandkumar
@NeurIPSConf
Professor Domingos, I graduated from UW and am a big fan of your work. I was a synthetic biologist and your book got me interested in ML. But I think there is merit to what Professor Anandkumar is saying.
@bNeethipudi
This is so true. I always struggled to understand why my family who were early members of Brahmo Samaj took 3 generations to marry someone who wasn't brahmin (my mom). When one of the core premises of brahmos was that caste was bad. Also, somehow most brahmos were also brahmins.
@durgesh_anjalee
@thegreatsr
I'm not sure how people are avoiding talking about it. Caste comes up every time a non-Indian asks me why Mukherjee is such a common last name in US academia (relatively speaking).
Way too many exciting things are happening at the intersection of AI/ML and Biology. So much so that my reading list has begun growing exponentially. Someone needs to ask for a 6 mo moratorium, so I can catch up. 😭
@ravikb01
@taslimanasreen
Why? What are you afraid of? That your kids will learn to kiss in public? Well guess what bro, they will anyways. The only thing you can achieve by shielding them is to delay the inevitable.
Okay, a part of me feels super guilty for bragging but I couldn't help it today. It's a 2 acceptances kinda day for me!!! Can't remember ever receiving 2 acceptances in one day before (have received 2 rejects on the same day though).
@KevinKaichuang
Unacceptable. Maybe if they used the office suite and teams for all their internal stuff, they wouldn't have to fire people for lack of clear communication.
@bNeethipudi
Even my mom is UC, just not a brahmin. While they did their best to teach me that caste is evil, but they also had their own biases against things that were proxies for caste. E.g. they somewhat looked down on people whose families weren't college educated etc.
@MarginalScribb
Yeah .... it's honestly scary what a few terms of an authoritarian leader can do to even somewhat functioning democracies. India and Turkey (not sure if they are comparable or not) both seemed to have societal transformation after authoritarian regimes.
This is a rather small news but I just enrolled into the graduate certificate program in Applied Statistics at Penn State. I always felt like I should have taken more stats classes in grad school, so I am happy I will be taking a few more now. :)
@mbeisen
@Sciencing_Bi
I'm not saying people shouldn't use pseudonym accounts or that they never are credible. However, I feel this episode makes a good case for being more careful in verifying information posted by pseudonym accounts.
@bNeethipudi
Whereas, the only reason I come from generations of college educated ancestors is probably because my ancestors were brahmins and had more access to education than others.
UW ECE faculty needs to learn from UW Stats faculty on the right way to advertise faculty positions on twitter. The appropriate amount of capitalization and exclamation marks are paramount.
FINISHING A PHD OR POST-DOC IN STAT/BIOSTAT/MATH/CS/RELATED???
Tenure-track position in the Department of Statistics at University of Washington!!!! 😲😲😲😲
@SoniaSikka4
India was by no means a perfect country before 2014 but it's astounding to me how much the country has changed since then. I can't even recognize it anymore.
@swatiatrest
@achakrava
When the students at my alma mater (JU) had given him a thrashing, I had said that they took it too far, but I completely agree with their choices now.
My latest pre-print on using concepts from manifold learning to infer disease staging in
#Alzheimers
. This work was done while I was at
@Sagebio
with several amazing co-authors (
@BenLogsdon1
,
@gwcarter
to name a few)!! (1/n)
@sanjanacurtis
I am not sure why Indians in India get so butthurt if an Indian (or person of Indian origin) living outside of India dates/marries a non-Indian. Recently got a random DM accusing me of lusting after the whites and colorism, because my wife is Iranian American.
@KimIversenShow
Your statement would hold if vaccines had 100% efficacy. But literally no vaccine I know of has 100% efficacy. So if a vaccinated person were to be exposed to one vaccinated and one unvaccinated person who had both had the same disease exposure (all else being equal) ...
@kearney_melissa
I see a lot of problems with this line of argument. First, because in most departments, political views are not a factor in faculty hiring decisions. So, in order to enforce 'political diversity', you'd have to explicitly make political views a part of the hiring process.
@chhillar_rajat
@AcademicChatter
I don't use the 'Dr' before my name but I completely support the PhDs who do. Geez dude!!! What's with all this hatred towards PhDs?
Shubo Noboborsho (Happy Bengali New Year) to anyone who celebrates!!! Also to those who don't. Look, it's only mid-April and it's already been a pretty depressing year with all the mass shootings and political/financial/economic turmoil everywhere. Y'all could also the reset!
How is it that the largely affluent Indian immigrant community in Seattle is so cool with the terrible standard of sweets sold at the handful of places that sell Indian sweets? Like, costco sells better quality Indian sweets sometimes than some of these 'Indian stores'.
@MarginalScribb1
I think a part of why people feel this way is because in school we aren't taught as much about the effects of the caste system on non-UC folks. So people judge their privilege based on their immediate wealth/status. I'll be a liar if I didn't feel this way in high school.
@mbeisen
I would like a GWAS study of favorite type of cookie. I feel as a society, we need to get to the bottom of what genomic abnormalities make people like oatmeal raisin cookies.
@gauravsabnis
Yup. I had literally never heard of it when I was growing up in my Calcutta. I asked my parents if it was ever celebrated and they said that prior to laat year, it used to be only celebrated by a few Marwari families.
I am pretty down today because of the COVID situation in India. My parents as well as a large part of my family still lives in India. Incredibly worried and from the looks of it, as are many of my twitter friends who are from India but live elsewhere. Here is hug for y'all:
My colleagues (I was only a minor author) at the
#AI4Good
research lab at Microsoft wrote a paper on the best practices and learnings of working in the AI for Good space: . It is now accepted at AIES-21. Hope others find it useful.
Both my parents got vaccinated yesterday (they live in India). I cannot explain the relief I feel. Additionally, a bunch of my relatives who were initially unwilling to get vaccinated, now seem willing after seeing that my parents got no significant side effects from the vaccine.
Agree with this. The best way to achieve these goals is to open your favorite bottle of whiskey and pour yourself a glass and ponder about your academic goals. You can always garden/slow-cook afterwards but whiskey induced pondering comes first.
GRE is a stupid test. Get rid of it forever. Also make the grad admission process more transparent. All schools should post explanations of how their grad admissions work.
#AcademicTwitter
This is especially true for PhD programs. I don't buy the argument that it is a good initial filter. I hope
@SCSatCMU
removes this as a requirement (and not just for this year) and does not wait for each phd program to do this separately.
Not doing a post-doc was one of the best financial decisions I have made in my life. The second was perhaps to buy a house as soon as I could afford to buy one but I credit my wife with that decision since I was quite happy renting.
The discourse around the postdoc recommendation has actually been refreshingly sober.
In a vacuum, $70k is good. It's a floor for many private positions, although they also go higher.
Reality aside, 5 yrs still feels too long for the *concept* of an intermediate career stage.
It's about time people start talking about this. This is super prevalent among Indians too (not that we aren't Asians). Like, when I was moving to the US, one of the most common advice I got was to stay away from 'sketchy' black neighborhoods.
@atrupar
@krystalball
Perhaps they do. But so does Hillary Clinton/DNC for not campaigning better and making the stakes clearer to the people who defected from Obama to Trump. I don't see a lot of people (other than Krystal/Saagar and the likes) calling out the at fault politicians.
@aseemiitk
@ravikb01
@taslimanasreen
Well you can't sex in public obviously. Mostly because that sentence is grammatically incorrect. Also thank you for your concern about my mental well-being. How kind of you. Such conversations do sometimes make me want to see a therapist.
As alluded in the STAT article, our work on using multiple medical imaging and biomarker modalities in UK Biobank to study the genetic architecture of liver fat accumulation is now online on medrxiv (1/):
Check out this really cool article in STAT news on the awesome work being done at insitro including work I have personally being involved in (in metabolic diseases).
#machinelearning
#drugdiscovery
People keep posting delicious looking food pics (I'm looking at you
@KevinKaichuang
), so I figured I will too. Here is a Calcutta style egg chicken roll. Not the prettiest dish but it turned out pretty good, I thought.
It was super fun working on this very cool paper with my colleagues at amazing insitro and my former intern
@raghav_gt
. This paper represents our effort to formally evaluate the utility of ML learned representations in genetic discovery. (1/)
(1/3) insitro is excited to share our paper “EmbedGEM: A Framework to Evaluate the Utility of Embeddings for Genetic Discovery,” focusing on assessing the use of ML-derived embeddings for genetic discovery using heritability & relevance to specific diseases.
As someone who grew up in a big Indian city, it's a little ridiculous to me that there is a wild animal (bobcat) casually sitting in my backyard right now.
My daughter turns 1 this week, so we had a party for her (within our bubble). Anyways, while picking the theme, both me and my wife instantly agreed that it had to be strawberries because my daughter LOVES them. This was literally the first time we agreed on something like this.
@MarginalS3rd
My wife and I used to work in related research areas when we first met. She showed some interest in what I was working on during one of our first dates, so I showed up with an unfinished manuscript on our next date. Don't recommend doing this. She still makes fun of it.
@DebashishAdhik1
@taslimanasreen
They kissed, didn't full on make out or have sex. I think if you see the video you'll realize that it wasn't really vulgar at all.
Are you at
#ashg2023
and interested in using embeddings for genetic discovery? Come by our poster (PB4007) where I will present the first (to our knowledge) framework to systematically evaluate the utility of embeddings for genetic discovery.
#genetics
#embeddings
1/5 Several members of our team are honored to be in Washington, D.C. this week to join other leaders in
#genetics
at the
#ASHG23
Annual Meeting! We invite you to join us as we present posters around several of our latest advancements utilizing
#ML
and data at scale.
Dating advice to scientists: if the person you’ve been on <2 dates on, shows an interest in your work, definitely show up on the next date with draft manuscripts. It worked out for me, might work out for you too.
@npparikh
When I had just started dating my wife, she casually expressed an interest in my early PhD work on mathematical modeling of biological circuits. So on the next date, I showed up with a draft manuscript.
@srikosuri
A version of this is quite common in Germany. It allows grad students to make a living wage while pursuing their PhD. If done right, I don't see why this is such a big deal.
Do statisticians sometimes resent ML folks for rediscovering things that they have been doing for ages and suddenly making it cool n stuff? Legit question. I know I would be resentful right now if I were a statistician who spent their life working on causal inference.
I have never called myself a doctor, but I am mighty tempted to start calling myself one just so that Rupa here can judge the merit of my work. I am honestly curious about her thoughts on my papers.
If like me you thought
@DrBiden
was an actual doctor, i.e physician, you'll be disappointed to learn she has a doctorate in education. I've always viewed Phds who call themselves doctors with suspicion. It reveals insecurity and often mediocrity.
So my adopted country (USA) and my country of origin (India) are both going through crises of democracy. :/ I don't really have anything else to add to this. Just have been thinking about this a lot lately.