metadata
license: cc-by-4.0
task_categories:
- summarization
tags:
- medical
pretty_name: Sci Lay - Biomedic Articles Lay Summarization Dataset
size_categories:
- 10K<n<100K
- 1K<n<10K
source_datasets:
- original
dataset_info:
- config_name: all
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 37188
num_bytes: 102519845
- name: validation
num_examples: 4649
num_bytes: 12732276
- name: test
num_examples: 4649
num_bytes: 12895577
- config_name: NC
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 5775
num_bytes: 8994822
- name: validation
num_examples: 686
num_bytes: 1062540
- name: test
num_examples: 672
num_bytes: 1046065
- config_name: A
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 3895
num_bytes: 10474616
- name: validation
num_examples: 505
num_bytes: 1350338
- name: test
num_examples: 488
num_bytes: 1328224
- config_name: NIHR
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 1883
num_bytes: 10950530
- name: validation
num_examples: 228
num_bytes: 1292364
- name: test
num_examples: 233
num_bytes: 1359568
- config_name: PLGEN
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 3084
num_bytes: 9619727
- name: validation
num_examples: 357
num_bytes: 1110852
- name: test
num_examples: 418
num_bytes: 1321409
- config_name: PLPAT
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 2927
num_bytes: 9319909
- name: validation
num_examples: 361
num_bytes: 1145996
- name: test
num_examples: 362
num_bytes: 1156552
- config_name: PLCB
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 2595
num_bytes: 8233420
- name: validation
num_examples: 325
num_bytes: 1031860
- name: test
num_examples: 319
num_bytes: 1013223
- config_name: PLNTD
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 2263
num_bytes: 7874395
- name: validation
num_examples: 295
num_bytes: 1009333
- name: test
num_examples: 304
num_bytes: 1061794
- config_name: B
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 1632
num_bytes: 4297954
- name: validation
num_examples: 201
num_bytes: 521571
- name: test
num_examples: 190
num_bytes: 497916
- config_name: I
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 1165
num_bytes: 3041368
- name: validation
num_examples: 151
num_bytes: 395223
- name: test
num_examples: 163
num_bytes: 436120
- config_name: EL
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 184
num_bytes: 569898
- name: validation
num_examples: 28
num_bytes: 87549
- name: test
num_examples: 28
num_bytes: 89038
- config_name: PLB
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 901
num_bytes: 2812274
- name: validation
num_examples: 114
num_bytes: 355634
- name: test
num_examples: 108
num_bytes: 335193
- config_name: CB
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 832
num_bytes: 1327371
- name: validation
num_examples: 126
num_bytes: 200302
- name: test
num_examples: 129
num_bytes: 207203
- config_name: SD
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 776
num_bytes: 1233319
- name: validation
num_examples: 105
num_bytes: 166910
- name: test
num_examples: 89
num_bytes: 141194
- config_name: MBIO
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 618
num_bytes: 1636604
- name: validation
num_examples: 63
num_bytes: 171903
- name: test
num_examples: 78
num_bytes: 204650
- config_name: C
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 6765
num_bytes: 16685642
- name: validation
num_examples: 874
num_bytes: 2176258
- name: test
num_examples: 847
num_bytes: 2082565
- config_name: OTHER
features:
- name: doi
dtype: string
- name: pmcid
dtype: string
- name: title
dtype: string
- name: plain_text
dtype: string
- name: technical_text
dtype: string
- name: journal
dtype: string
- name: topics
sequence: string
- name: keywords
sequence: string
splits:
- name: train
num_examples: 1893
num_bytes: 5447996
- name: validation
num_examples: 230
num_bytes: 653643
- name: test
num_examples: 221
num_bytes: 614863
config_names:
- all
- NC
- A
- NIHR
- PLGEN
- PLPAT
- PLCB
- PLNTD
- B
- I
- EL
- PLB
- CB
- SD
- MBIO
- C
- OTHER
Dataset Card for Sci Lay
Table of Contents
- Dataset Description
- Dataset Structure
- Dataset Creation
- Considerations for Using the Data
- Additional Information
Dataset Description
- Homepage: Sci Lay
- Repository:
- Paper:
- Leaderboard:
- Point of Contact: Mattia Panni
Dataset Summary
SCILAY comprises 46,486 instances, each representing a scientific article in the biomedical domain. Each instance in the dataset includes the following components: - plain_text: Containing a plain language summary of the scientific article. This section is written in a simple and accessible language, and is intended to be understandable by a wide audience. - technical_text: This section contains the abstract of the scientific article. It provides a detailed and technical description of the research conducted in the article. In addition to the textual content, each instance is associated with the following metadata: - Keywords: Keywords that capture the main topics and themes addressed in the article. - Journal: The journal in which the article is published, providing context about the source of the research. - DOI (Digital Object Identifier): A unique identifier for the article, facilitating easy referencing. The main objective of the SCILAY dataset is to support the development and evaluation of text summarization models that can effectively simplify complex scientific language while retaining the essential information. Each article is published by a scientific journal. There are fifteen such journal classifications:
- NC: Nature Communications
- A: Animals : an Open Access Journal from MDPI
- NIHR: NIHR Journals Library
- PLGEN: PLoS Genetics
- PLPAT: PLoS Pathogens
- PLCB: PLoS Computational Biology
- PLNTD: PLoS Neglected Tropical Diseases
- B: Biology
- I: Insects
- EL: eLife
- PLB: PLoS Biology
- CB: Communications Biology
- SD: Scientific Data
- MBIO: mBio
- C: Cancers
- OTHER: which includes additional journals that taken individually would not have contributed sufficient instances
Current defaults are 1.0.0 version (cased raw strings) and 'all' journals:
from datasets import load_dataset
ds = load_dataset("paniniDot/sci_lay") # default is 'all' journals
ds = load_dataset("paniniDot/sci_lay", "all") # the same as above
ds = load_dataset("paniniDot/sci_lay", "NC") # only 'NC' journal (Nature Communications)
ds = load_dataset("paniniDot/sci_lay", journals=["NC", "A"])
Supported Tasks and Leaderboards
[More Information Needed]
Languages
English
Dataset Structure
Data Instances
Each instance contains a set of doi, pmcid, plain_text, technical_text, journal, topics, keywords. Each of which was extracted by scraping articles in XML and HTML format.
{
'doi': '10.3390/ani12040445',
'pmcid': 'PMC8868321',
'plain_text': 'PPP3CA is one of the candidate genes for goat reproduction, but no studies have been carried out yet. Therefore, the purpose of this study was to determine the associations between copy number variations in the goat PPP3CA gene and litter size and semen quality in goats, including Shaanbei white cashmere goats (SBWC) (n = 353) and Guizhou Heima (GZHM) goats (n = 64). Based on the association analysis, the results showed that only CNV1 (copy number variation 1) and CNV2 (copy number variation 2) were distinctly related to the first-birth litter size in female goats (p = 7.6802 × 10−11; p = 5.0895 × 10−9), and they were also significantly associated with the semen quality of SBWC goats (p < 0.05). These findings prove that the PPP3CA gene plays an important role in reproduction traits in goats.',
'technical_text': 'Copy number variations (CNVs) have many forms of variation structure, and they play an important role in the research of variety diversity, biological evolution and disease correlation. Since CNVs have a greater impact on gene regulation and expression, more studies are being finalized on CNVs in important livestock and poultry species. The protein phosphatase 3 catalytic subunit alpha (PPP3CA) is a key candidate gene involved in the goat fecundity trait, and has important effects on precocious puberty, estrogen signal transduction pathways and oocyte meiosis. Additionally, PPP3CA also has a dephosphorylation effect in the process of spermatogonial stem cell meiosis and spermatogenesis. So far, there is no research on the relationship between the copy number variations of the PPP3CA gene and reproduction traits. Therefore, the purpose of this study was to determine the association between copy number variations in the goat PPP3CA gene and litter size and semen quality in Shaanbei white cashmere goats (SBWC) (n = 353) and Guizhou Heima goats (n = 64). Based on the association analysis, the results showed that only CNV1 and CNV2 within the PPP3CA gene were distinctly related to the first-birth litter size in female goats (p = 7.6802 × 10−11; p = 5.0895 × 10−9, respectively) and they were also significantly associated with the semen quality of SBWC goats (p < 0.05). In addition, individuals with Loss genotypes demonstrated better phenotypic performance compared to those with other types. Therefore, CNV1 and CNV2 of the PPP3CA gene are potentially useful for breeding, as they are linked to important goat reproduction traits.',
'journal': 'Animals : an Open Access Journal from MDPI',
'topics': [ 'Article' ],
'keywords': [ 'goat', 'PPP3CA', 'copy number variation (CNV)', 'litter size', 'semen quality' ]
}
Data Fields
doi: (Digital Object Identifier). It is a unique alphanumeric string assigned to a digital document, such as a research paper, article, or dataset. Not all istances have it.pmcid: A unique identifier in the PubMed Central library database. Not all istances have it.plain_text: The summary of the article in plain english.technical_text: The abstract of the article.journal: The journal which published the article.topics: An object containing the types in which the article is classified (i.e. Research Article, Review, ecc.). Not all istances have it.keywords: An object containing the keywords of the article. Not all istances have it.
Data Splits
| train | validation | test | |
|---|---|---|---|
| all | 37188 | 4649 | 4649 |
| NC | 5775 | 686 | 672 |
| A | 3895 | 505 | 488 |
| NIHR | 1883 | 228 | 233 |
| PLGEN | 3084 | 357 | 418 |
| PLPAT | 2927 | 361 | 362 |
| PLCB | 2595 | 325 | 319 |
| PLNTD | 2263 | 295 | 304 |
| B | 1632 | 201 | 190 |
| I | 1165 | 151 | 163 |
| EL | 184 | 28 | 28 |
| PLB | 901 | 114 | 108 |
| CB | 832 | 126 | 129 |
| SD | 776 | 105 | 89 |
| MBIO | 618 | 63 | 78 |
| C | 6765 | 874 | 847 |
| OTHER | 1893 | 230 | 221 |
Dataset Creation
Curation Rationale
[More Information Needed]
Source Data
Initial Data Collection and Normalization
[More Information Needed]
Who are the source language producers?
[More Information Needed]
Annotations
Annotation process
[More Information Needed]
Who are the annotators?
[More Information Needed]
Personal and Sensitive Information
[More Information Needed]
Considerations for Using the Data
Social Impact of Dataset
[More Information Needed]
Discussion of Biases
[More Information Needed]
Other Known Limitations
[More Information Needed]
Additional Information
Dataset Curators
[More Information Needed]
Licensing Information
[More Information Needed]
Citation Information
[More Information Needed]