| Name | Description | PMID/GitHub |
|---|---|---|
| BioPhi | A platform for antibody design, humanization, and humanness evaluation based on natural antibody repertoires and deep learning | 35133949 |
| DeepAb | Deep learning models and structure realization scripts for the DeepAb antibody structure prediction method | GitHub |
| Title | Link |
|---|---|
| Computational and artificial intelligence-based methods for antibody development | Link |
| Analysis of the antibody structure based on high-resolution crystallographic studies | Link |
| Fast, accurate antibody structure prediction from deep learning on massive set of natural antibodies | Link |
| Machine-designed biotherapeutics: opportunities, feasibility and advantages of deep learning in computational antibody discovery | Link |
| Computational approaches to therapeutic antibody design: established methods and emerging trends | Link |
| Efficient evolution of human antibodies from general protein language models | Link |
| Name | Description | PMID/Link |
|---|---|---|
| LIBRA-seq | linking B cell receptor to antigen specificity through sequencing | 31787378 |
| BEAM | Barcode Enabled Antigen Mapping | Link |
| Tool Type | Tool Name | Description | PMID/Link |
|---|---|---|---|
| Database | Antibody Registry | The Antibody Registry gives researchers a way to universally identify antibodies used in their research. | Link |
| Database | PDB | Database of protein structures | 10592235 |
| Database | OAS | Compendium of Ig sequences gathered from large NGS studies | 30217829 |
| Database | SAbDab | Antibody structures in PDB | 24214988 |
| Database | SAbDab-Thera | Database of antibody therapeutics | 31555805 |
| Database | IMGT | Database on genome, proteome, genetics and structure of Ig, TCR and MHC | 15608269 |
| Database | Abysis | Database of sequence- and structure-based bioinformatics tools | 27561707 |
| Database | Immune Epitope Database | Database on antibody and T cell epitopes | 30357391 |
| Antibody Sequence Assessment | Abnum | Tool to number antibody VH and VL sequence | 18614234 |
| Antibody Sequence Assessment | MUSCLE | Tool for sequence alignment | 15034147 |
| Antibody Sequence Assessment | CLUSTALW | Tool for sequence alignment | 12824352 |
| Antibody Sequence Assessment | Jalview | Analysis and visualization of multiple sequence alignments | 19151095 |
| Antibody Sequence Assessment | NetMHCIIpan | Tool to predict binding sites of MHC II molecules | 32308001 |
| Antibody Sequence Assessment | Therapeutic Antibody Profiler | In silico assessment of antibody developability | 30765520 |
| Antibody Sequence Assessment | Humanness Score | Assess the degree of “humanness” of antibodies | 17442342 |
| Antibody Sequence Assessment | Parapred | Sequence-based algorithm for paratope prediction | 29672675 |
| Antibody Structural Assessment | Swiss-model | 3D modeling of antibodies | 29788355 |
| Antibody Structural Assessment | PIGS | 3D modeling of antibodies | 25375991 |
| Antibody Structural Assessment | ABodyBuilder | 3D modeling of antibodies | 27392298 |
| Antibody Structural Assessment | PyMOL | Molecular visualization and assessment | 21053052 |
| Antibody Structural Assessment | SWISS PDBViewer | Integrated suite of tools for structural assessment of proteins | 19517507 |
| Antibody Structural Assessment | AbAngle | Tool to compute relative orientation between the variable domains (VH and VL) | 23708320 |
| Protein-Protein Docking | ZDOCK | Protein-protein docking | 12784371 |
| Protein-Protein Docking | HADDOCK | Protein-protein docking | 12580598 |
| Protein-Protein Docking | pyDockWeb | Protein-protein docking | 23661696 |
| CDR Redesign | AIF | Distribution of pairwise contact in Ag-Ab interface | 23569282 |
| CDR Redesign | EPCN | 2D network of epitope-paratope contacts | 26189681 |
| CDR Redesign | RosettaAntibodyDesign | Framework for ab initio design of antibodies | 29702641 |
| Name | Description | Link |
|---|---|---|
| Benchmarking of antibody modeling methods | It contains the raw, intermediate and output data involved in the comparison of three tools of protein structure modelling from plain amino acid sequence. | GitHub |
| Company Name | Description | Link |
|---|---|---|
| Natural Antibody | Unlocking the power of data-driven predictive methods for antibody therapeutic industry. | Link |
| Profluent | Decoding the language of proteins with AI | Link |
| BigHat Biosciences | BigHat Biosciences is designing safer, more effective antibody therapies for patients using machine learning and synthetic biology. | Link |
| Collection Name | Description | Link |
|---|---|---|
| Papers for protein design using deep learning | Inspired by Kevin Kaichuang Yang's awesome Machine-learning-for-proteins, we established this repository with a sharper focus on deep learning for protein design, which is a rapidly evolving field. | Link |
| Awesome BCR repertoire papers | Collection of papers related to BCR repertoire analyses | GitHub |
| Papers on machine learning for proteins | A collaborative list of machine learning papers on protein applications. | GitHub |
| Database Collection | NAR Database Summary Paper Alphabetic List | Link |
| 资源名称 | 链接 |
|---|---|
| 抗体发现：杂交瘤技术和噬菌体展示抗体库技术 | Link |
| 抗体筛选行业研究报告 | Link |
| 单克隆抗体 (科普) | Link |
| LIBRA-seq是革命性的开发单克隆抗体的新方法 | Link |
| 用BEAM技术找单克隆抗体 | Link |
| 万字长文 >>> 深度解读抗体发现技术 | http://thunder-bio.com/nd.jsp?id=61 |
| 抗体结构详解 | http://www.detaibio.com/topics/antibody-structure.html |