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Documentation

  • Requesting An Account
  • Get Started
    • Quick Start
    • Common Terms
    • HPC Resources
    • Theory of HPC
      • Overview of threads, cores, and sockets in Slurm for HPC workflows
    • Git Guide
  • Connecting to Unity
    • SSH
    • Unity OnDemand
    • Connecting to Desktop VS Code
  • Get Help
    • Frequently Asked Questions
    • How to Ask for Help
    • Troubleshooting
  • Cluster Specifications
    • Node List
    • Partition List
      • Gypsum
    • Storage
    • Node Features (Constraints)
      • NVLink and NVSwitch
    • GPU Summary List
  • Managing Files
    • Command Line Interface (CLI)
    • Disk Quotas
    • FileZilla
    • Globus
    • Scratch: HPC Workspace
    • Unity OnDemand File Browser
  • Submitting Jobs
    • Batch Jobs
      • Array Batch Jobs
      • Large Job Counts
      • Monitor a batch job
    • Helper Scripts
    • Interactive CLI Jobs
    • Unity OnDemand
    • Message Passing Interface (MPI)
    • Slurm cheat sheet
  • Software Management
    • Building Software from Scratch
    • Conda
    • Modules
      • Module Usage
    • Renv
    • Unity OnDemand
      • JupyterLab OnDemand
    • Venv
  • Tools & Software
    • ColabFold
    • R
      • R Parallelization
    • Unity GPUs
  • Datasets
    • AI and ML
      • AlpacaFarm
      • audioset
      • bigcode
      • biomed_clip
      • blip_2
      • blip_2
      • coco
      • Code Llama
      • DeepAccident
      • DeepSeek
      • DINO v2
      • epic-kitchens
      • florence
      • gemma
      • glm
      • gpt
      • gte-Qwen2
      • ibm-granite
      • Idefics2
      • Imagenet 1K
      • inaturalist
      • infly
      • instruct-blip
      • internLM
      • intfloat
      • LAION
      • lg
      • linq
      • llama
      • Llama2
      • llama3
      • llama4
      • Llava_OneVision
      • Lumina
      • mixtral
      • msmarco
      • natural-questions
      • objaverse
      • openai-whisper
      • phi
      • playgroundai
      • pythia
      • qwen
      • R1-1776
      • rag-sequence-nq
      • red-pajama-v2
      • s1-32B
      • satlas_pretrain
      • scalabilityai
      • sft
      • SlimPajama
      • t5
      • Tulu
      • V2X
      • video-MAE
      • videoMAE-v2
      • vit
      • wildchat
    • Bioinformatics
      • AlphaFold3 Databases
      • BFD/MGnify
      • Big Fantastic Database
      • checkm
      • ColabFoldDB
      • dfam
      • EggNOG
      • EggNOG
      • gmap
      • GMAP-GSNAP database (human genome)
      • GTDB
      • igenomes
      • Kraken2
      • MGnify
      • NCBI BLAST databases
      • NCBI RefSeq database
      • NCBI RefSeq database
      • Parameters of Evolutionary Scale Modeling (ESM) models
      • params
      • PDB70
      • PDB70 for ColabFold
      • PINDER
      • PLINDER
      • Protein Data Bank
      • Protein Data Bank database in mmCIF format
      • Protein Data Bank database in SEQRES records
      • Tara Oceans 18S amplicon
      • Tara Oceans MATOU gene catalog
      • Tara Oceans MGT transcriptomes
      • Uniclust30
      • UniProtKB
      • UniRef100
      • UniRef30
      • UniRef90
      • Updated databases for ColabFold
    • Using HuggingFace Datasets
  1. Unity
  2. Documentation
  3. Datasets
  4. Bioinformatics
  5. PLINDER

PLINDER

Version: 2024-02
Path:/datasets/bio/plinder
URL:https://github.com/plinder-org/plinder
Downloaded:2024-10-31
Cite:Durairaj, J., Adeshina, Y., Cao, Z., Zhang, X., Oleinikovas, V., Duignan, T., McClure, Z., Robin, X., Studer, G., Kovtun, D., Rossi, E., Zhou, G., Veccham, S., Isert, C., Peng, Y., Sundareson, P., Akdel, M., Corso, G., Stärk, H., . . . Naef, L. (2024). PLINDER: The protein-ligand interactions dataset and evaluation resource. bioRxiv (Cold Spring Harbor Laboratory). https://doi.org/10.1101/2024.07.17.603955
Variant:
    Bibtex:
    @article{Durairaj2024, title = {PLINDER: The protein-ligand interactions dataset and evaluation resource}, url = {http://dx.doi.org/10.1101/2024.07.17.603955}, DOI = {10.1101/2024.07.17.603955}, publisher = {Cold Spring Harbor Laboratory}, author = {Durairaj,  Janani and Adeshina,  Yusuf and Cao,  Zhonglin and Zhang,  Xuejin and Oleinikovas,  Vladas and Duignan,  Thomas and McClure,  Zachary and Robin,  Xavier and Studer,  Gabriel and Kovtun,  Daniel and Rossi,  Emanuele and Zhou,  Guoqing and Veccham,  Srimukh and Isert,  Clemens and Peng,  Yuxing and Sundareson,  Prabindh and Akdel,  Mehmet and Corso,  Gabriele and St\"{a}rk,  Hannes and Tauriello,  Gerardo and Carpenter,  Zachary and Bronstein,  Michael and Kucukbenli,  Emine and Schwede,  Torsten and Naef,  Luca}, year = {2024}, month = jul}
    
    Last modified: Friday, March 14, 2025 at 2:20 PM. See the commit on GitLab.
    University of Massachusetts Amherst University of Massachusetts Amherst University of Rhode Island University of Rhode Island University of Massachusetts Dartmouth University of Massachusetts Dartmouth University of Massachusetts Lowell University of Massachusetts Lowell University of Massachusetts Boston University of Massachusetts Boston Mount Holyoke College Mount Holyoke College Smith College Smith College
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