@dalloliogm.bsky.social
The winners of the Arc Virtual Cell Challenge have been announced!
Did a foundation model outperform regressions?
Did the leaderboard hacking matter in the end?
Here are my thoughts. gmdbioinformatics.substack.com/p/arc-virtua...
#ArcVirtualCellChallenge #VirtualCellChallenge
Did a foundation model outperform regressions?
Did the leaderboard hacking matter in the end?
Here are my thoughts. gmdbioinformatics.substack.com/p/arc-virtua...
#ArcVirtualCellChallenge #VirtualCellChallenge
Arc Virtual Cell Challenge - part 4: Winners announced!
Did Bio-Foundation models outperform traditional statistical approaches?
gmdbioinformatics.substack.com
December 7, 2025 at 3:51 PM
The winners of the Arc Virtual Cell Challenge have been announced!
Did a foundation model outperform regressions?
Did the leaderboard hacking matter in the end?
Here are my thoughts. gmdbioinformatics.substack.com/p/arc-virtua...
#ArcVirtualCellChallenge #VirtualCellChallenge
Did a foundation model outperform regressions?
Did the leaderboard hacking matter in the end?
Here are my thoughts. gmdbioinformatics.substack.com/p/arc-virtua...
#ArcVirtualCellChallenge #VirtualCellChallenge
Proud to have contributed to this bioArXiv paper, presenting an Agentic System for Cell Type annotation in single-cell
open.substack.com/pub/gmdbioin...
🧬 🖥️
#singlecell #bioinformatics #ngs #cytetype
open.substack.com/pub/gmdbioin...
🧬 🖥️
#singlecell #bioinformatics #ngs #cytetype
open.substack.com
November 18, 2025 at 11:35 AM
Proud to have contributed to this bioArXiv paper, presenting an Agentic System for Cell Type annotation in single-cell
open.substack.com/pub/gmdbioin...
🧬 🖥️
#singlecell #bioinformatics #ngs #cytetype
open.substack.com/pub/gmdbioin...
🧬 🖥️
#singlecell #bioinformatics #ngs #cytetype
Proud to have contributed to this bioArXiv paper, presenting an Agentic System for Cell Type annotation in single-cell
open.substack.com/pub/gmdbioin...
#singlecell #bioinformatics #ngs #cytetype
open.substack.com/pub/gmdbioin...
#singlecell #bioinformatics #ngs #cytetype
New preprint: Multi-agent AI enables evidence-based cell annotation in single-cell transcriptomics
The paper on CyteType is on bioArXiv!
open.substack.com
November 18, 2025 at 11:33 AM
Proud to have contributed to this bioArXiv paper, presenting an Agentic System for Cell Type annotation in single-cell
open.substack.com/pub/gmdbioin...
#singlecell #bioinformatics #ngs #cytetype
open.substack.com/pub/gmdbioin...
#singlecell #bioinformatics #ngs #cytetype
My third article on the Arc Virtual Cell Challenge.
This time, we learn how to train our very first Virtual Cell Model.
gmdbioinformatics.substack.com/p/arc-virtua...
#ArcInstitute #VirtualCellChallenge #BiologicalModelling #FoundationModels #MachineLearning #ML
This time, we learn how to train our very first Virtual Cell Model.
gmdbioinformatics.substack.com/p/arc-virtua...
#ArcInstitute #VirtualCellChallenge #BiologicalModelling #FoundationModels #MachineLearning #ML
Arc Virtual Cell Challenge part 3: how to train your own Virtual Cell Model
Let's go through the example notebook on running STATE, Arc's Virtual Cell model.
gmdbioinformatics.substack.com
November 13, 2025 at 11:11 AM
My third article on the Arc Virtual Cell Challenge.
This time, we learn how to train our very first Virtual Cell Model.
gmdbioinformatics.substack.com/p/arc-virtua...
#ArcInstitute #VirtualCellChallenge #BiologicalModelling #FoundationModels #MachineLearning #ML
This time, we learn how to train our very first Virtual Cell Model.
gmdbioinformatics.substack.com/p/arc-virtua...
#ArcInstitute #VirtualCellChallenge #BiologicalModelling #FoundationModels #MachineLearning #ML
I'm participating in the Arc Virtual Cell Challenge. The objective is to predict the effect of gene perturbations in H1 cell lines.
Here is my diary - more posts to come soon!
gmdbioinformatics.substack.com/p/arc-virtua...
#bio #bioinformatics #arc #foundation_models
Here is my diary - more posts to come soon!
gmdbioinformatics.substack.com/p/arc-virtua...
#bio #bioinformatics #arc #foundation_models
gmdbioinformatics.substack.com
November 3, 2025 at 2:07 PM
I'm participating in the Arc Virtual Cell Challenge. The objective is to predict the effect of gene perturbations in H1 cell lines.
Here is my diary - more posts to come soon!
gmdbioinformatics.substack.com/p/arc-virtua...
#bio #bioinformatics #arc #foundation_models
Here is my diary - more posts to come soon!
gmdbioinformatics.substack.com/p/arc-virtua...
#bio #bioinformatics #arc #foundation_models
I'm participating in the Arc Virtual Cell Challenge. The objective is to predict the effect of gene perturbations in H1 cell lines.
Here is my diary - more posts to come soon!
gmdbioinformatics.substack.com/p/arc-virtua...
#foundation-models #arc @arcinstitute.org #ML
Here is my diary - more posts to come soon!
gmdbioinformatics.substack.com/p/arc-virtua...
#foundation-models #arc @arcinstitute.org #ML
Arc Virtual Cell Challenge: my diary
A journey into bio-foundation models to predict perturbations in single-cell data
gmdbioinformatics.substack.com
November 3, 2025 at 2:06 PM
I'm participating in the Arc Virtual Cell Challenge. The objective is to predict the effect of gene perturbations in H1 cell lines.
Here is my diary - more posts to come soon!
gmdbioinformatics.substack.com/p/arc-virtua...
#foundation-models #arc @arcinstitute.org #ML
Here is my diary - more posts to come soon!
gmdbioinformatics.substack.com/p/arc-virtua...
#foundation-models #arc @arcinstitute.org #ML
My 8yo son and I developed a maths game called Times Tables Animals, featuring cute bunnies, maths, and volcanoes. Here is our story.
dalloliogm.github.io/Times-Table-...
@kilocode.ai @ttrockstars.bsky.social #llm #parents-ai
dalloliogm.github.io/Times-Table-...
@kilocode.ai @ttrockstars.bsky.social #llm #parents-ai
Times Table Animals - Welcome to Albert Animals!
dalloliogm.github.io
August 12, 2025 at 10:23 AM
My 8yo son and I developed a maths game called Times Tables Animals, featuring cute bunnies, maths, and volcanoes. Here is our story.
dalloliogm.github.io/Times-Table-...
@kilocode.ai @ttrockstars.bsky.social #llm #parents-ai
dalloliogm.github.io/Times-Table-...
@kilocode.ai @ttrockstars.bsky.social #llm #parents-ai
I joined Kaggle about 15 years ago. However, I never had time to complete the registration until earlier this year. Am I the person who has taken the most time to reach the Expert level on Kaggle? Let's look at the numbers :-)
gmdbioinformatics.substack.com/p/am-i-the-s...
gmdbioinformatics.substack.com/p/am-i-the-s...
Am I the slowest Kaggle user ever?
I joined Kaggle 15 years ago - but I only started competing this year.
gmdbioinformatics.substack.com
June 6, 2025 at 2:01 PM
I joined Kaggle about 15 years ago. However, I never had time to complete the registration until earlier this year. Am I the person who has taken the most time to reach the Expert level on Kaggle? Let's look at the numbers :-)
gmdbioinformatics.substack.com/p/am-i-the-s...
gmdbioinformatics.substack.com/p/am-i-the-s...
In my opinion, MLflow is the missing piece for ensuring reproducibility of analysis in Bioinformatics. However, not many people in the field are familiar with it. Here I provide an example based on Differential Expression. medium.com/@dalloliogm/...
#Bioinformatics
#mlflow🧬🖥️
#Bioinformatics
#mlflow🧬🖥️
Medium: Read and write stories.
On Medium, anyone can share insightful perspectives, useful knowledge, and life wisdom with the world.
medium.com
January 23, 2025 at 12:51 PM
In my opinion, MLflow is the missing piece for ensuring reproducibility of analysis in Bioinformatics. However, not many people in the field are familiar with it. Here I provide an example based on Differential Expression. medium.com/@dalloliogm/...
#Bioinformatics
#mlflow🧬🖥️
#Bioinformatics
#mlflow🧬🖥️
Foundation Models for Biology are going to revolutionize Bioinformatics in 2025. I wrote a short article to explain what they are and how they can be used. #llm #bioinformatics
medium.com/@dalloliogm/...
medium.com/@dalloliogm/...
Foundation models for Biology: a short primer
Foundation Models in Biology represent one of the most important advances in Bioinformatics in recent years. They are pretty different from…
medium.com
January 17, 2025 at 3:57 PM
Foundation Models for Biology are going to revolutionize Bioinformatics in 2025. I wrote a short article to explain what they are and how they can be used. #llm #bioinformatics
medium.com/@dalloliogm/...
medium.com/@dalloliogm/...
These two courses on DeepLearning.ai complement each other. The first one is about pre-training a LLM, and the second about fine-tuning them.
- learn.deeplearning.ai/courses/pret...
- learn.deeplearning.ai/courses/fine...
#llm-challenge #ai-challenge
- learn.deeplearning.ai/courses/pret...
- learn.deeplearning.ai/courses/fine...
#llm-challenge #ai-challenge
Home
DeepLearning.AI | Andrew Ng | Join over 7 million people learning how to use and build AI through our online courses. Earn certifications, level up your skills, and stay ahead of the industry.
DeepLearning.ai
December 30, 2024 at 4:02 PM
These two courses on DeepLearning.ai complement each other. The first one is about pre-training a LLM, and the second about fine-tuning them.
- learn.deeplearning.ai/courses/pret...
- learn.deeplearning.ai/courses/fine...
#llm-challenge #ai-challenge
- learn.deeplearning.ai/courses/pret...
- learn.deeplearning.ai/courses/fine...
#llm-challenge #ai-challenge
o1 is the "Wise" model from OpenAI, the one that "thinks before it speaks" and thinks with its virtual right hemisphere.
This course summarizes the differences between o1 and other models, and how to optimize costs and times.
#ai-challenge #llm-challenge
learn.deeplearning.ai/accomplishme...
This course summarizes the differences between o1 and other models, and how to optimize costs and times.
#ai-challenge #llm-challenge
learn.deeplearning.ai/accomplishme...
Giovanni Marco Dall'Olio, congratulations on completing Reasoning with o1!
Giovanni Marco Dall'Olio, congratulations on completing Reasoning with o1!
learn.deeplearning.ai
December 20, 2024 at 3:48 PM
o1 is the "Wise" model from OpenAI, the one that "thinks before it speaks" and thinks with its virtual right hemisphere.
This course summarizes the differences between o1 and other models, and how to optimize costs and times.
#ai-challenge #llm-challenge
learn.deeplearning.ai/accomplishme...
This course summarizes the differences between o1 and other models, and how to optimize costs and times.
#ai-challenge #llm-challenge
learn.deeplearning.ai/accomplishme...
Just finished this course on Understanding and Applying Text Embedding.
Short and useful materials to understand how text can be embedded in a vector space, based on concept similarity, and used for training new models. #ai-challenge #llm-challenge
learn.deeplearning.ai/accomplishme...
Short and useful materials to understand how text can be embedded in a vector space, based on concept similarity, and used for training new models. #ai-challenge #llm-challenge
learn.deeplearning.ai/accomplishme...
Giovanni Marco Dall'Olio, congratulations on completing Understanding and Applying Text Embeddings!
Giovanni Marco Dall'Olio, congratulations on completing Understanding and Applying Text Embeddings!
learn.deeplearning.ai
December 20, 2024 at 1:55 PM
Just finished this course on Understanding and Applying Text Embedding.
Short and useful materials to understand how text can be embedded in a vector space, based on concept similarity, and used for training new models. #ai-challenge #llm-challenge
learn.deeplearning.ai/accomplishme...
Short and useful materials to understand how text can be embedded in a vector space, based on concept similarity, and used for training new models. #ai-challenge #llm-challenge
learn.deeplearning.ai/accomplishme...
I've just finished catching up on the 5-Day GenAI course from Kaggle and Google (www.kaggle.com/learn-guide/...)
I recommend this course to anyone wishing to learn more about LLMs. The explanations are clear, from the basics to the most technical parts. The Kaggle notebooks show concrete examples.
I recommend this course to anyone wishing to learn more about LLMs. The explanations are clear, from the basics to the most technical parts. The Kaggle notebooks show concrete examples.
LinkedIn
This link will take you to a page that’s not on LinkedIn
lnkd.in
December 20, 2024 at 12:10 PM
I've just finished catching up on the 5-Day GenAI course from Kaggle and Google (www.kaggle.com/learn-guide/...)
I recommend this course to anyone wishing to learn more about LLMs. The explanations are clear, from the basics to the most technical parts. The Kaggle notebooks show concrete examples.
I recommend this course to anyone wishing to learn more about LLMs. The explanations are clear, from the basics to the most technical parts. The Kaggle notebooks show concrete examples.
I'm catching up on the 5-day-GenAI course from Kaggle.
The first day introduces the Transformer architecture and the most important prompting techniques.
www.kaggle.com/learn-guide/...
#llm-challenge #ai-challenge
The first day introduces the Transformer architecture and the most important prompting techniques.
www.kaggle.com/learn-guide/...
#llm-challenge #ai-challenge
5-Day Gen AI Intensive Course with Google Learn Guide
www.kaggle.com
December 16, 2024 at 2:41 PM
I'm catching up on the 5-day-GenAI course from Kaggle.
The first day introduces the Transformer architecture and the most important prompting techniques.
www.kaggle.com/learn-guide/...
#llm-challenge #ai-challenge
The first day introduces the Transformer architecture and the most important prompting techniques.
www.kaggle.com/learn-guide/...
#llm-challenge #ai-challenge
LLMs are transforming drug discovery, but many outside the field don't know about it. Science communication is key to bridging this gap. 🧪🎄 Here is a short talk I gave at the 'Salute è Donna' conference in Lanciano, Italy. ✨ #AI #DrugDiscovery"
www.slideshare.net/slideshow/ap...
www.slideshare.net/slideshow/ap...
Applicazioni di chatGPT e altri LLMs per la ricerca di farmaci
Applicazioni di chatGPT e altri LLMs per la ricerca di farmaci - Download as a PDF or view online for free
www.slideshare.net
December 13, 2024 at 8:58 AM
LLMs are transforming drug discovery, but many outside the field don't know about it. Science communication is key to bridging this gap. 🧪🎄 Here is a short talk I gave at the 'Salute è Donna' conference in Lanciano, Italy. ✨ #AI #DrugDiscovery"
www.slideshare.net/slideshow/ap...
www.slideshare.net/slideshow/ap...
This course gives a nice intro to Diffusion Models, including some examples of code for training a small diffusion model and generating some images in a notebook. learn.deeplearning.ai/courses/diff...
How Diffusion Models Work - DeepLearning.AI
Learn and build diffusion models from the ground up, understanding each step. Learn about diffusion models in use today and implement algorithms to speed up sampling.
learn.deeplearning.ai
December 1, 2024 at 2:14 PM
This course gives a nice intro to Diffusion Models, including some examples of code for training a small diffusion model and generating some images in a notebook. learn.deeplearning.ai/courses/diff...
Today I've completed this course from Kaggle, on Machine Learning explanability. It's a great course, including partial dependency plots, permutation importance, and SHAP values. #ai-challenge
llm-challenge www.kaggle.com/learn/machin...
llm-challenge www.kaggle.com/learn/machin...
Learn Machine Learning Explainability Tutorials
Extract human-understandable insights from any model.
www.kaggle.com
November 28, 2024 at 10:20 PM
Today I've completed this course from Kaggle, on Machine Learning explanability. It's a great course, including partial dependency plots, permutation importance, and SHAP values. #ai-challenge
llm-challenge www.kaggle.com/learn/machin...
llm-challenge www.kaggle.com/learn/machin...
Kaggle has a collection of excellent free courses on Data Science. Today I've completed the Intro to Deep Learning, which is a good refresher on the basis of TensorFlow and Keras to train neural networks. #ai-challenge #llm-challenge
www.kaggle.com/learn/intro-...
www.kaggle.com/learn/intro-...
Learn Intro to Deep Learning Tutorials
Use TensorFlow and Keras to build and train neural networks for structured data.
www.kaggle.com
November 27, 2024 at 10:24 PM
Kaggle has a collection of excellent free courses on Data Science. Today I've completed the Intro to Deep Learning, which is a good refresher on the basis of TensorFlow and Keras to train neural networks. #ai-challenge #llm-challenge
www.kaggle.com/learn/intro-...
www.kaggle.com/learn/intro-...
Excellent course on Pair Programming with a Large Language Model!
I think this is the way of the future. Every programmer or data scientist should learn to use LLMs to improve their code.
learn.deeplearning.ai/accomplishme...
I think this is the way of the future. Every programmer or data scientist should learn to use LLMs to improve their code.
learn.deeplearning.ai/accomplishme...
Giovanni Marco Dall'Olio, congratulations on completing Pair Programming with a Large Language Model!
Giovanni Marco Dall'Olio, congratulations on completing Pair Programming with a Large Language Model!
learn.deeplearning.ai
November 26, 2024 at 2:22 PM
Excellent course on Pair Programming with a Large Language Model!
I think this is the way of the future. Every programmer or data scientist should learn to use LLMs to improve their code.
learn.deeplearning.ai/accomplishme...
I think this is the way of the future. Every programmer or data scientist should learn to use LLMs to improve their code.
learn.deeplearning.ai/accomplishme...
Another course on implementing applications using LLMs. In this case, they do something that any nerd should try at least once: creating a text-based role-play fantasy game.
learn.deeplearning.ai/accomplishme... #llm-challenge #ai-challenge
learn.deeplearning.ai/accomplishme... #llm-challenge #ai-challenge
Giovanni Marco Dall'Olio, congratulations on completing Building an AI-Powered Game!
Giovanni Marco Dall'Olio, congratulations on completing Building an AI-Powered Game!
learn.deeplearning.ai
November 26, 2024 at 1:52 PM
Another course on implementing applications using LLMs. In this case, they do something that any nerd should try at least once: creating a text-based role-play fantasy game.
learn.deeplearning.ai/accomplishme... #llm-challenge #ai-challenge
learn.deeplearning.ai/accomplishme... #llm-challenge #ai-challenge
I've decided to start a personal challenge to upskill my LLM and AI/ML knowledge! Over the next month, until Christmas, I'll try to complete a course on LLM, transformers, and deep learning every day. Wish me luck! #llm-challenge #upskill #llm #ai-challenge
November 26, 2024 at 1:49 PM
I've decided to start a personal challenge to upskill my LLM and AI/ML knowledge! Over the next month, until Christmas, I'll try to complete a course on LLM, transformers, and deep learning every day. Wish me luck! #llm-challenge #upskill #llm #ai-challenge