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Protein coding genes from a list of candidates. Systematically download

protein's amino acid sequence and full atomistic structure, including

Another list focuses on Python stuff related to Chemistry.

protein sequences and classify them based on their modes of duplication

protein abundance data for CITE-seq, spatial CITE-seq, REAP

The TMSig package contains tools to prepare, analyze, and visualize

protein abundance compared to conventional aggregation methods. This algorithm employs

proteins in flow and mass cytometry data while reducing biases

Protein Data Bank integrating dynamic behaviors and physical properties into

protein interaction networks, and scientific knowledge graph learning across PyTorch

PhenoMol is a bioinformatic framework that integrates comprehensive multi-omic

protein language models demonstrating versatile generative and predictive capabilities for protein

protein backbone generator utilizing hierarchical fold class labels for conditioning

protein sequences and analyze them. Anchor pairs are detected with

protein partners play a key role in fertility and maintaining

Coralysis is an R package featuring a multi-level integration

protein language model family, including PMC-15B supporting sequence- and structure

protein properties and visualizes position of peptide immunogens within protein

protein binding pocket, enabling scaffold hopping and linker design workflows

protein activities, enabling rapid protein engineering with minimal experimental data

Universal 3D molecular pretraining framework with 209M conformations, scaling to

RNA foundation model trained on millions of RNA sequences for

proteins trained on thousands of GPUs and Google TPUs using

Diffusion-based molecular docking achieving SOTA blind docking performance, treating

protein markers at the single-cell level, producing high dimensional

protein, step by step, using the BioExcel Building Blocks (biobb

protein sequence design in the context of small-molecule ligands

A system for rapidly aligning entire genomes, whether in complete

LLM for scientific research papers

energetics (energy and entropy contributions) around proteins and small molecules.

LLM agents across scientific domains

Large-scale biomolecular instruction dataset for chemistry/biology LLMs (ICLR2024)

SKESA is a de-novo sequence read assembler for microbial

OUTPOST is a comprehensive pipeline for whole-metagenome shotgun sequencing

A molecular informatics toolkit with an integration of bioinformatics and

protein). HERON also calculates significance on the probe, epitope, and protein

protein sequence design (inverse folding) from backbone structures, achieving 52.4% sequence

proteins in LC-MS/MS proteomics data. This test detects

Resources on ChIP-seq data which include papers, methods, links

UNIX-style FASTA manipulation tools.

protein structure design with multi-motif scaffolding capabilities, achieving state

Protein Modeling DTI, Drug Property, PPI, DDI, Protein Function Prediction

The 'funOmics' package ggregates or summarizes omics data into higher

protein-protein interactions as priors for gene co-expression, netsmooth

A collection of research papers for AI-based protein design.

proteins at either bulk level or cell type level can be integrated

tidyFlowCore bridges the gap between flow cytometry analysis using the

Generative pre-training for genomics