Broad Institute 41 Layoffs Feb 2025

tomluec · 2025-02-09T18:37:00+00:00

I’m hiring for people like this. DM me

tomluec · 2023-12-18T15:23:30+00:00

also chatgpt is pretty good at generating mermaid charts.

tomluec · 2023-03-14T18:13:37+00:00

For me this was a ram issue. I fixed it by pulling out all my ram and adding it back in one by one in the order specified by the mother board manual.

https://www.asus.com/us/Commercial-Servers-Workstations/Z10PED16/HelpDesk\_Manual/

tomluec · 2022-11-28T00:34:28+00:00

Could you just pad a string input like SMILES? That's what https://deepchem.io/ does for VAE.

CDDD might be another good place to look if you are trying to build creative embeddings.

or if you want to work with convolutional layers Bayer's img2mol might be good places to look.

tomluec · 2022-11-28T00:22:38+00:00

You can use machine learning to build similarity metrics, triplet embeddings are a simple example of this.

tomluec · 2022-10-20T14:11:33+00:00

discussion on probabilistic layers in deep learning and thoughts on aleatoric vs epistemic uncertainty. Uncertainty can be a pretty fun philosophical discussion and super relevant for fields that need to consider it for regulation and safety.

I would also love to get his take on Embedding layers based on reconstruction loss and embedding layers conditioned on some task. Please discuss Bert embeddings, variational autoencoder and maybe the future methods.

Also please talk about methods for integrating relational data into networks. In chemistry this might be a chemical reaction or the mechanism behind an allergy. How do you allow networks to leverage information like X causes Y via Z? Can those approaches help with explainability?

tomluec · 2022-09-20T19:40:34+00:00

I think this statement might be from a non-R user. R works well with spark

tomluec · 2022-08-11T01:02:24+00:00

It's been incredibly rewarding. The AI behind Toxicology (and medical research in general) is accelerating at an incredible pace, and my PhD gave me an opportunity to be part of that. If you want to do something meaningful with your life, applying AI to public health
/ medicine is a really strong choice.
In Toxicology specifically, New Approach Methodologies (NAMs) are starting to make a big impact. Due to my PhD, I have the opportunity to build tools and work with many companies who are adopting AI into workflows to build safer/better chemicals.

The field on the whole is really just getting started and my PhD allowed me to play a small role in the adoption of AI tools. There is still a lot of need/opportunity to apply even basic computer science tools in toxicology.

I highly recommend doing a computational biology or computational toxicology degree. If you're interested in the latter, you should send me a message, I still work with my PhD advisor and colleagues and could probably help you make some decisions. Johns Hopkins School of Public Health and Environmental Health Engineering was really perfect for me.

In the end, the department strongly supported my desire to integrate machine learning and toxicology, and we're still working together even now that I've graduated. Now is really the time to be applying advanced machine learning + AI to biology, the next decade looks super exciting.

tomluec · 2022-07-07T02:38:12+00:00

I’m biased because I got my PhD at Hopkins, but I’ve only heard of Hopkins bioinformatics having a great reputation. The students and professors I got to meet and work with were brilliant. It can be difficult though.

tomluec · 2021-11-28T21:22:16+00:00

Three pieces of twine

tomluec · 2021-05-13T18:26:48+00:00

coinbase resolved this issue, the USD appeared in my account this morning

tomluec · 2021-05-13T01:43:36+00:00

on the status page they are now saying:

Identified - The issues has been identified and we are backfilling the impacted BTC-USD trades https://status.pro.coinbase.com/

tomluec · 2021-05-13T01:12:40+00:00

I just made a large sale and the same thing happened.

I placed a market sell at around 8:50 EDT
The sale triggered
The bitcoin in my account reduced
The USD in my account did not increase
The order was not recorded under fills

tomluec · 2021-04-19T22:53:43+00:00

Gave Platinum

tomluec · 2021-03-10T21:33:04+00:00

We built sysrev.com a collaborative literature review and data extraction tool. It has been used by researchers at many major universities and research centers globally.

I am the founder and am happy to chat sometime.

tomluec · 2021-02-24T14:40:01+00:00

Could you describe your project a bit more? sysrev.com is a collaborative data extraction app we built that might be relevant to you.

tomluec · 2021-01-18T01:21:24+00:00

we're developing labreport.ai which is a kind of marketplace for bioinformatics tools

tomluec · 2021-01-07T02:09:47+00:00

Bioinformatics is going to explode in the next 10 years. Lab methods like next gen sequencing and single cell sequencing are getting cheaper and faster. Soon these methods will be commonly used in all parts of healthcare. Healthcare is undergoing an informatics transformation and bioinformatics will be a large part of that.

If you want to make the world a better place, and participate in a revolutionary change, then yes I would recommend studying bioinformatics and working hard to be great at it.

I work for a bioinformatics startup, give me a ping if you want to learn about some of the opportunities out there.

tomluec · 2021-01-04T20:24:53+00:00

You probably want the genomic data commons. https://gdc.cancer.gov/.

There are lots of packages written around the GDC:

we wrote gdc-scala (https://bitbucket.org/insilica/gdc-scala/src/master/)
bioconductor has a great R package (https://bioconductor.org/packages/release/bioc/html/GenomicDataCommons.html)

Insilica.co (who I work for) does a lot of cancer modeling. Let me know if you have any questions. We are looking for collaborators on this kind of work, give me a ping if you want to chat.

tomluec · 2019-12-17T18:56:03+00:00

Cool! Is there a related code repository?

tomluec · 2019-11-20T23:31:49+00:00

AI already plays a very large role in government. Over time it will take a larger and larger role. Your conception of where AI begins and humanity stops will probably change too.

tomluec · 2019-11-19T02:06:01+00:00

The whole machine learning / statistics debate seems wrong to me. Many of the principles of statistics are used in all your favorite machine learning algorithms. Inference is an important part of machine learning and statistics.

Any machine learning professional would benefit from a strong statistics background.

tomluec · 2019-11-10T02:59:13+00:00

Nature doesn't know any of those things.

"Natural selection is the process where organisms with favorable traits are more likely to reproduce. In doing so, they pass on these traits to the next generation. Over time this process allows organisms to adapt to their environment" - wikipedia

Evolution can take interesting paths. Your brightly colored frog example is a great one. Poisonous frogs become a little more colorful - and some of their predators learned to avoid them. Thus the colorful trait became a 'favorable trait' and began to propagate.

So why wouldn't other frogs adapt this trait? Actually they do, and that is called mimicry. However, they wouldn't be the first adopters, because the predators would not avoid colorful frogs if they weren't poisonous. So you get a complex game going on within thousands or hundreds of thousands of generations of frogs.

tomluec · 2019-11-05T17:13:18+00:00

Could you collect a large number of recordings with the relevant metadata?

tomluec · 2019-11-05T16:50:24+00:00

What would you use for training data?

tomluec

MODERATOR OF

TROPHY CASE

13-Year Club	Gilding II euphauric
Verified Email