| --- |
| language: |
| - en |
| license: other |
| tags: |
| - biology |
| - proteins |
| - sequence-classification |
| - benchmark |
| task_categories: |
| - text-classification |
| pretty_name: ProFET_NP_SP_Cleaved |
| --- |
| |
| # ProFET_NP_SP_Cleaved |
| |
| Binary benchmark for neuropeptide precursor prediction from protein sequences, adapted from the ProteinBERT benchmark collection. |
| |
| ## Source |
| |
| This dataset is sourced from the ProteinBERT benchmark repository: |
| https://github.com/nadavbra/protein_bert/tree/master/protein_benchmarks |
| |
| ## Curator Attribution |
| |
| This Hugging Face dataset packaging, curation, and publication was prepared by Dan Ofer. |
| |
| ## Splits and Schema |
| |
| - Splits follow the benchmark release (train/validation/test when available). |
| - Each row includes: |
| - seq: amino-acid sequence |
| - label: binary target (0 or 1) |
| |
| ## Hugging Face Repo |
| |
| - GrimSqueaker/ProFET_NP_SP_Cleaved |
|
|
| ## Citations |
|
|
| ```bibtex |
| @article{10.1093/bioinformatics/btac020, |
| author = {Brandes, Nadav and Ofer, Dan and Peleg, Yam and Rappoport, Nadav and Linial, Michal}, |
| title = {ProteinBERT: a universal deep-learning model of protein sequence and function}, |
| journal = {Bioinformatics}, |
| volume = {38}, |
| number = {8}, |
| pages = {2102-2110}, |
| year = {2022}, |
| doi = {10.1093/bioinformatics/btac020} |
| } |
| |
| @article{OferD2014, |
| author = {Ofer, Dan and Linial, Michal}, |
| title = {NeuroPID: a predictor for identifying neuropeptide precursors from metazoan proteomes}, |
| journal = {Bioinformatics}, |
| volume = {30}, |
| number = {7}, |
| pages = {931--940}, |
| year = {2014}, |
| doi = {10.1093/bioinformatics/btt725} |
| } |
| |
| @article{Karsenty2014, |
| author = {Karsenty, S. and Rappoport, N. and Ofer, D. and Zair, A. and Linial, M.}, |
| title = {NeuroPID: a classifier of neuropeptide precursors}, |
| journal = {Nucleic Acids Research}, |
| year = {2014}, |
| doi = {10.1093/nar/gku363} |
| } |
| |
| @article{Brandes2016, |
| author = {Brandes, Nadav and Ofer, Dan and Linial, Michal}, |
| title = {ASAP: A machine learning framework for local protein properties}, |
| journal = {Database}, |
| volume = {2016}, |
| year = {2016}, |
| doi = {10.1093/database/baw133} |
| } |
| ``` |
|
|
