Fine|Tuning Single|Cell Bio Foundation Models

Fine-Tuning Single-Cell Bio Foundation Models: A Beginner's Guide

It is much easier to learn something new when building on prior knowledge than to learn something new from scratch. Fine-tuning refers to the ...

Efficient Fine-Tuning of Single-Cell Foundation Models Enables...

In this study, we leverage single-cell foundation models (FMs) pretrained on tens of millions of single cells, encompassing multiple cell types, ...

Single-cell Bio Foundation Models: A beginner's overview - Medium

As the name suggests, single-cell foundation models are pre-trained on unlabelled single-cell data. Overview of some of the most promising open- ...

Single-cell foundation models: The next big thing?

Single-cell sequencing has already become a staple methodology for medical research. Much of this advancement has happened within, ...

A Deep Dive into Single-Cell RNA Sequencing Foundation Models

ABSTRACT Large-scale foundation models, which are pre-trained on massive, unlabeled datasets and subsequently fine-tuned on specific tasks, have recently ...

Context Matters for Foundation Models in Biology - Kempner Institute

To this end, we have developed PINNACLE, a novel contextual AI model for single-cell biology that supports a broad array of biomedical AI tasks ...

Helical on LinkedIn: Fine-Tuning Single-Cell Bio Foundation Models

Fine-tuning for single-cell foundation models is now available on our Github (https://lnkd.in/dXBQsfZV)! Have a look at Matthew Wood's ...

Parameter-Efficient Fine-Tuning Enhances Adaptation of Single Cell ...

However, the vast variability inherent in single-cell sequencing data impedes its utility for in-depth downstream analysis. Inspired by the foundation models in ...

Evaluating the Utilities of Foundation Models in Single-cell Data ...

Single-cell sequencing technologies offer high-throughout observations into complex biological systems at the cell level with multimodal data [1 ...

A deep dive into single-cell RNA sequencing foundation models

Large-scale foundation models, which are pre-trained on massive, un-labeled datasets and subsequently fine-tuned on specific tasks, have recently achieved ...

Foundation models - Open Problems in Single-Cell Analysis

Recent developments in deep-learning have led to the creation of several “foundation models” for single-cell data. These are large models that have been ...

General-purpose pre-trained large cellular models for single-cell ...

Current pretraining tasks in single-cell foundation models also fall into two categories: masked language modeling (MLM) tasks similar to BERT- ...

scFoundation: A Powerful AI Large-Scale Foundation Model for ...

Cell type annotation is crucial in single-cell studies, and scFoundation has proven to be highly effective in this task. By fine-tuning a single ...

A primer on scRNA-seq foundation models - Portal

It laid out the story of how so-called 'scRNA-seq Foundation Models' may potentially change how single-cell RNA sequencing (scRNA) data is ...

Parameter-Efficient Fine-Tuning Enhances Adaptation of Single Cell ...

Parameter-Efficient Fine-Tuning Enhances Adaptation of Single Cell Large Language Model for Cell Type Identification ... bioRxiv [Preprint]. 2024 ...

Foundation models for single-cell RNA-seq - AI + Medicine Newsletter

This technique has had a profound impact on our understanding of biological complexity and cellular diversity, leading to many key advancements ...

Universal Cell Embeddings: A Foundation Model for Cell Biology

Figure 2: Zero-shot cell embedding capabilities of UCE (a) Comparison of zero-shot and fine-tuned single-cell embedding models. A zero-shot ...

Parameter-Efficient Fine-Tuning Enhances Adaptation of Single Cell ...

Motivated by these benefits, emerging research has begun to explore the potential of foundation models in single-cell biology, particularly in ...

A Deep Dive into Single-Cell RNA Sequencing Foundation Models

Focusing on the fine-tuning task of cell type annotation, we explore the relative performance of pre-trained models compared to a simple ...

Cell-ontology guided transcriptome foundation model - arXiv

Overall, scCello showcases strong model generalization capabilities across a range of biological conditions, which is attributable to the ...