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Many full-length RNAs, particularly mRNAs, exceed the ~1K context lengths used to pretrain representative dense RNA encoders, forcing long transcripts to be truncated and preventing their 5′ UTR, CDS, and 3′ UTR from being modeled jointly at single-nucleotide resolution.

scRep is a PyTorch model for extracting cell embeddings from single-cell RNA-seq AnnData (.h5ad) inputs. This repository is a standalone Hugging Face release bundle: it includes checkpoint weights, the exact paired gene vocabulary, the inference implementation, and runnable examples.

For a convenient overview and download list, visit our model page for this model.

InstaNovo-P is a specialized transformer-based model for de novo peptide sequencing from phosphoproteomics mass spectrometry data. This model is specifically trained and optimized for identifying phosphorylated peptides and their modification sites.

A Data-Driven Router architecture for ADMET prediction.

SmileBERTa is a RoBERTa-based language model for chemistry, built on the ChemBERTa architecture and fine-tuned to predict small-molecule fragment SMILES from full small-molecule drug SMILES.

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A RoPE ViT Reg8 B/14 image encoder with average pooling, pretrained using CAPI-DINO on natural biological images. This model has not been fine-tuned for a specific classification task and is intended to be used as a general-purpose feature extractor or a backbone for downstream tasks like object…

Minimal HuggingFace repackage of the large variant of ModernGENA -- a ModernBERT DNA encoder pretrained on vertebrate genomes with masked language modeling.

Trained checkpoints for the ICLR 2026 paper A Function-Centric Graph Neural Network Approach For Predicting Electron Densities.

This repository provides four SCIAI-DFT models for density optimization and geometry optimization with machine-learned orbital-free density functional theory (ML-OFDFT).

!Aerova

CENO-1B-1m is a checkpoint of the CENO base DNA foundation model (1M context (stage 4)). It is a plain causal language model over genomic sequence on a Nemotron-H Mamba/Attention/MoE hybrid backbone, with no MSA inputs.

!Aerova

OmniTCR is a component-aware autoregressive foundation model for learning relationships among peptide epitopes, major histocompatibility complex (MHC) molecules, T-cell receptor alpha chains (TRA) and T-cell receptor beta chains (TRB).

PertMind is a biological language model built around a central discovery: public cellular perturbation atlases can be reorganized into reinforcement-learning environments, where measured gene responses act as computable reward signals for biological reasoning.

A from-scratch, decoder-only protein language model for the phosphotransferase superfamily (EC 2.7.-: protein kinases plus sugar/lipid/nucleotide kinases), trained entirely locally on Apple Silicon via MLX — no cloud compute, no fine-tuning of an existing model.

Run locally - Benchmarks - Whitepaper - Model details - Responsible use

This model is a fine-tuned version of ESMC-600M (ESM Cambrian) for paired antibody variable-domain sequences containing heavy and light chains. It was trained using a CDR-focused masking strategy to improve representations for antibody binding affinity prediction.

Native OpenMed and OpenMedKit vision-language inference for Apple Silicon, including local clinical-document and chart workflows on Mac, iPhone, and iPad.

!OpenDDE banner

Eleuthia is a binary protein variant classifier that predicts whether a mutated protein sequence is likely Pathogenic or Benign. It is fine-tuned from ESM-2 and intended for research support in variant prioritization workflows.

A 350M encoder that finds nine types of personally identifiable information across 17 languages and returns exact character spans for review and redaction.

UBio-MolFM is a foundation-model suite for molecular modeling, designed for bio-systems. This release, UBio-MolFM-V1.5 (Stage 3), is built on the E2Former-V2 linear-scaling equivariant transformer and is the checkpoint used for every simulation reported in UBio-MolFM: Enabling Biomolecular Dynamics…

Checkpoints for "From Alignment to Synthesis: Contrastive Volumetric Grounding for Text-to-CT Generation" (Molino et al., BMVC 2026).

BondShift: Organic Mechanism Reasoning

Parrotlet-a 2.5 Pro is a purpose-built automatic speech recognition (ASR) model for medical speech in Indian healthcare settings. It transcribes Indian English, Hindi, Marathi, Kannada and Telugu, including the heavily code-mixed speech typical of real consultations (English drug names and clinical…

Vision-language model for dermatology, pretrained with MAGEN (Multi-Agent data GENeration) and O-MAKE (Ontology-based Multi-Aspect Knowledge-Enhanced pretraining).

A clinical reasoning assistant for early-stage Alzheimer's assessment. It joins a 3D MRI + biomarker classifier (Vbai-2.6AD) to a reasoning LLM (Gemma 4 12B) inside a single forward pass — the diagnosis is passed as vectors, not text.

A modern CLI and GraphQL API tool for Material Science Deep Learning Pipelines.

Contrastively fine-tuned ESM-C 300M producing fixed-length protein embeddings where biological similarity maps to embedding proximity. Intended for retrieval, clustering, and nearest-neighbour transfer.

SERAPH is a deep learning model designed for 3-state (Q3) protein secondary structure prediction. It processes raw single amino acid sequences and predicts residue-level secondary structure states: Alpha Helix (H), Beta Sheet (E), or Coil/Loop (C).

!TVBP Architecture !Parameters !Trainable !Brownian Reservoir !Framework !Biology

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