datset card

README.md

@@ -45,7 +45,9 @@ YAML tags:
 
 ### Dataset Summary
 
-This dataset is based on the content of the SourceData (https://sourcedata.embo.org) database, which contains manually annotated figure legends written in English and extracted from scientific papers in the domain of cell and molecular biology (Liechti et al, Nature Methods, 2017, https://doi.org/10.1038/nmeth.4471). The dataset was built to train models for the automatic extraction of a knowledge graph based from the scientific literature. The dataset can be used to train models for text segmentation, named entity recognition and semantic role labeling. The dataset is pre-tokenized with the `roberta-base` tokenizer.
+This dataset is based on the content of the SourceData (https://sourcedata.embo.org) database, which contains manually annotated figure legends written in English and extracted from scientific papers in the domain of cell and molecular biology (Liechti et al, Nature Methods, 2017, https://doi.org/10.1038/nmeth.4471). 
+
+The dataset is pre-tokenized with the `roberta-base` tokenizer.
 
 ### Supported Tasks and Leaderboards
 
@@ -81,13 +83,13 @@ The text in the dataset is English.
 
 ### Data Fields
 
-- `tokens`:
-- `input_ids`:
+- `tokens`: tokens as a`list` of `string` produced by `roberta-base` tokenizer
+- `input_ids`: token id in `roberta-base` tokenizers' vocabulary provided as a`list` of `int` 
 - `label_ids`:
-  - `entity_types`:
-  - `geneprod_roles`:
-  - `boring`:
-  - `panel_start`: 
+  - `entity_types`: `list` of `strings` for the IOB2 tags for entity type; possible value in `["O", "I-SMALL_MOLECULE",  "B-SMALL_MOLECULE",  "I-GENEPROD", "B-GENEPROD", "I-SUBCELLULAR", "B-SUBCELLULAR", "I-CELL", "B-CELL", "I-TISSUE", "B-TISSUE", "I-ORGANISM", "B-ORGANISM", "I-EXP_ASSAY", "B-EXP_ASSAY"]`
+  - `geneprod_roles`: `list` of `strings` for the IOB2 tags for experimental roles; values in `["O", "I-CONTROLLED_VAR", "B-CONTROLLED_VAR", "I-MEASURED_VAR", "B-MEASURED_VAR"]`
+  - `boring`: `list` of `strings` for IOB2 tags for entities unrelated to causal design; values in ["O", "I-BORING", "B-BORING"]
+  - `panel_start`: `list` of `strings` for IOB2 tags `["O", "B-PANEL_START"]`
 
 ### Data Splits
 
@@ -106,7 +108,7 @@ The text in the dataset is English.
 
 ### Curation Rationale
 
-[More Information Needed]
+The dataset was built to train models for the automatic extraction of a knowledge graph based from the scientific literature. The dataset can be used to train models for text segmentation, named entity recognition and semantic role labeling. 
 
 ### Source Data
 
@@ -116,31 +118,31 @@ The text in the dataset is English.
 
 #### Who are the source language producers?
 
-[More Information Needed]
+The examples are extracted from the figure legends from scientific papers in cell and molecular biology. 
 
 ### Annotations
 
 #### Annotation process
 
-[More Information Needed]
+The annotations were produced manually with expert curators from the SourceData project (https://sourcedata.embo.org)
 
 #### Who are the annotators?
 
-[More Information Needed]
+Curators of the SourceData project.
 
 ### Personal and Sensitive Information
 
-[More Information Needed]
+None known.
 
 ## Considerations for Using the Data
 
 ### Social Impact of Dataset
 
-[More Information Needed]
+Not applicable.
 
 ### Discussion of Biases
 
-[More Information Needed]
+The examples are heavily biased towards cell and molecular biology and are enriched in examples from papers published in EMBO Press journals (https://embopress.org)
 
 ### Other Known Limitations
 
@@ -150,7 +152,7 @@ The text in the dataset is English.
 
 ### Dataset Curators
 
-[More Information Needed]
+Thomas Lemberger, EMBO.
 
 ### Licensing Information