| SPECIES800_autotagged | | This project comprises the SPECIES800 corpus documents automatically annotated by the Jensenlab tagger.
Annotated entity types are:
Genes/proteins from the mentioned organisms (and any human ones)
PubChem Compound identifiers
NCBI Taxonomy entries
Gene Ontology cellular component terms
BRENDA Tissue Ontology terms
Disease Ontology terms
Environment Ontology terms
The SPECIES 800 (S800) comprises 800 PubMed abstracts. In its original form species mentions were manually identified and mapped to the corresponding NCBI Taxonomy identifiers.
Described in:
The SPECIES and ORGANISMS Resources for Fast and Accurate Identification of Taxonomic Names in Text.
Pafilis E, Frankild SP, Fanini L, Faulwetter S, Pavloudi C, et al. (2013). PLoS ONE, 2013, 8(6): e65390. doi:10.1371/journal.pone.0065390.
The manually annotated corpus is also available as a PubAnnotation project (see here).
| 0 | Evangelos Pafilis, Sampo Pyysalo, Lars Juhl Jensen | evangelos | 2015-11-20 | Testing | |
| bc2gn_test | | test | 0 | | | 2021-07-13 | Testing | |
| CORD-19-Sentences | | | 13.4 M | | Jin-Dong Kim | 2023-11-24 | Testing | |
| MENA-example2 | | | 3 | | Jin-Dong Kim | 2023-11-24 | Testing | |
| sonoma | | _ | 19.3 K | Standigm | | 2023-11-24 | Testing | |
| speech-test | | | 6 | | Jin-Dong Kim | 2023-11-26 | Testing | |
| AlvisNLP-Async-Test | | Test for the asynchronous AlvisNLP/ML annotator family. | 0 | Robert Bossy | rbossy | 2023-11-26 | Testing | |
| CORD-19-SciBite-sentences | | | 11.2 K | | Jin-Dong Kim | 2023-11-26 | Testing | |
| glycosmos-test-structure-v1 | | | 471 | | ISSAKU YAMADA | 2023-11-27 | Testing | |
| UCDIT_TEST | | colitis link | 91.6 K | | alo33 | 2023-11-27 | Testing | |
| LitCovid-sample-MedDRA | | | 185 | | Jin-Dong Kim | 2023-11-27 | Testing | |
| LitCoin-entities-OrganismTaxon-PD | | | 949 | | Jin-Dong Kim | 2023-11-27 | Testing | |
| GlyCosmos600-GlycoProteins | | GlycoProtein annotations were made using the glycoprotein-name dictionary on PubDictionaries:
http://pubannotation.org/projects/GlyCosmos600-docs
The documents were imported from the GlyCosmos600-docs project:
http://pubannotation.org/projects/GlyCosmos600-docs | 3.68 K | | Jin-Dong Kim | 2023-11-27 | Testing | |
| GlyCosmos600-GlycoEpitope | | | 277 | | Jin-Dong Kim | 2023-11-27 | Testing | |
| example-dialog | | | 0 | | Jin-Dong Kim | 2023-11-27 | Testing | |
| pubtator-sample | | Sample annotation of PubTator produced by Zhiyong Lu et al. | 28 | Zhiyong Lu | Jin-Dong Kim | 2023-11-27 | Testing | |
| GlycoBiology-PACDB | | cGGDB-based annotation to GlycoBiology abstracts | 3.03 K | Toshihide Shikanai | shikanai | 2023-11-27 | Testing | |
| Parkinson | | | 54 | | Jin-Dong Kim | 2023-11-28 | Testing | |
| GlycoBiology-cGGDB | | cGGDB-based annotation to GlycoBiology abstracts | 36 | Toshihide Shikanai | shikanai | 2023-11-28 | Testing | |
| LitCoin_Mondo | | | 1.96 K | | Yasunori Yamamoto | 2023-11-28 | Testing | |
