source_system stringclasses 1
value | source_id stringclasses 5
values | task stringclasses 2
values | instruction stringclasses 10
values | response stringclasses 10
values | messages listlengths 2 2 |
|---|---|---|---|---|---|
pubmed | 36927031 | metadata-extraction | Extract a structured paper record from the research abstract below. Return valid JSON with id, title, authors, published, primary_category, categories, url, and summary.
Title: Evolutionary-scale prediction of atomic-level protein structure with a language model.
Authors: Zeming Lin, Halil Akin, Roshan Rao, Brian Hie,... | {
"id": "36927031",
"title": "Evolutionary-scale prediction of atomic-level protein structure with a language model.",
"authors": [
"Zeming Lin",
"Halil Akin",
"Roshan Rao",
"Brian Hie",
"Zhongkai Zhu",
"Wenting Lu",
"Nikita Smetanin",
"Robert Verkuil",
"Ori Kabeli",
"Yaniv... | [
{
"role": "user",
"content": "Extract a structured paper record from the research abstract below. Return valid JSON with id, title, authors, published, primary_category, categories, url, and summary.\n\nTitle: Evolutionary-scale prediction of atomic-level protein structure with a language model.\nAuthors: Z... |
pubmed | 36927031 | citation-generation | Generate a BibTeX citation for the paper described below.
Title: Evolutionary-scale prediction of atomic-level protein structure with a language model.
Authors: Zeming Lin, Halil Akin, Roshan Rao, Brian Hie, Zhongkai Zhu, Wenting Lu, Nikita Smetanin, Robert Verkuil, Ori Kabeli, Yaniv Shmueli, Allan Dos Santos Costa, M... | @article{pmid36927031,
title={Evolutionary-scale prediction of atomic-level protein structure with a language model.},
author={Zeming Lin and Halil Akin and Roshan Rao and Brian Hie and Zhongkai Zhu and Wenting Lu and Nikita Smetanin and Robert Verkuil and Ori Kabeli and Yaniv Shmueli and Allan Dos Santos Costa and... | [
{
"role": "user",
"content": "Generate a BibTeX citation for the paper described below.\n\nTitle: Evolutionary-scale prediction of atomic-level protein structure with a language model.\nAuthors: Zeming Lin, Halil Akin, Roshan Rao, Brian Hie, Zhongkai Zhu, Wenting Lu, Nikita Smetanin, Robert Verkuil, Ori Kab... |
pubmed | 34050498 | metadata-extraction | Extract a structured paper record from the research abstract below. Return valid JSON with id, title, authors, published, primary_category, categories, url, and summary.
Title: Protein Structure Prediction: Conventional and Deep Learning Perspectives.
Authors: V A Jisna, P B Jayaraj
Published: 2021 Aug
Updated: 2021 A... | {
"id": "34050498",
"title": "Protein Structure Prediction: Conventional and Deep Learning Perspectives.",
"authors": [
"V A Jisna",
"P B Jayaraj"
],
"published": "2021 Aug",
"primary_category": "The protein journal",
"categories": [
"Journal Article",
"Research Support, Non-U.S. Gov't",
... | [
{
"role": "user",
"content": "Extract a structured paper record from the research abstract below. Return valid JSON with id, title, authors, published, primary_category, categories, url, and summary.\n\nTitle: Protein Structure Prediction: Conventional and Deep Learning Perspectives.\nAuthors: V A Jisna, P ... |
pubmed | 34050498 | citation-generation | Generate a BibTeX citation for the paper described below.
Title: Protein Structure Prediction: Conventional and Deep Learning Perspectives.
Authors: V A Jisna, P B Jayaraj
Published: 2021 Aug
Updated: 2021 Aug
Primary category: The protein journal
Categories: Journal Article, Research Support, Non-U.S. Gov't, Review
U... | @article{pmid34050498,
title={Protein Structure Prediction: Conventional and Deep Learning Perspectives.},
author={V A Jisna and P B Jayaraj},
journal={The protein journal},
year={2021}
} | [
{
"role": "user",
"content": "Generate a BibTeX citation for the paper described below.\n\nTitle: Protein Structure Prediction: Conventional and Deep Learning Perspectives.\nAuthors: V A Jisna, P B Jayaraj\nPublished: 2021 Aug\nUpdated: 2021 Aug\nPrimary category: The protein journal\nCategories: Journal Ar... |
pubmed | 35879651 | metadata-extraction | Extract a structured paper record from the research abstract below. Return valid JSON with id, title, authors, published, primary_category, categories, url, and summary.
Title: Integrated structure-based protein interface prediction.
Authors: M Walder, E Edelstein, M Carroll, S Lazarev, J E Fajardo, A Fiser, R Viswana... | {
"id": "35879651",
"title": "Integrated structure-based protein interface prediction.",
"authors": [
"M Walder",
"E Edelstein",
"M Carroll",
"S Lazarev",
"J E Fajardo",
"A Fiser",
"R Viswanathan"
],
"published": "2022 Jul 25",
"primary_category": "BMC bioinformatics",
"categor... | [
{
"role": "user",
"content": "Extract a structured paper record from the research abstract below. Return valid JSON with id, title, authors, published, primary_category, categories, url, and summary.\n\nTitle: Integrated structure-based protein interface prediction.\nAuthors: M Walder, E Edelstein, M Carrol... |
pubmed | 35879651 | citation-generation | Generate a BibTeX citation for the paper described below.
Title: Integrated structure-based protein interface prediction.
Authors: M Walder, E Edelstein, M Carroll, S Lazarev, J E Fajardo, A Fiser, R Viswanathan
Published: 2022 Jul 25
Updated: 2022 Jul 25
Primary category: BMC bioinformatics
Categories: Journal Articl... | @article{pmid35879651,
title={Integrated structure-based protein interface prediction.},
author={M Walder and E Edelstein and M Carroll and S Lazarev and J E Fajardo and A Fiser and R Viswanathan},
journal={BMC bioinformatics},
year={2022}
} | [
{
"role": "user",
"content": "Generate a BibTeX citation for the paper described below.\n\nTitle: Integrated structure-based protein interface prediction.\nAuthors: M Walder, E Edelstein, M Carroll, S Lazarev, J E Fajardo, A Fiser, R Viswanathan\nPublished: 2022 Jul 25\nUpdated: 2022 Jul 25\nPrimary categor... |
pubmed | 36780132 | metadata-extraction | Extract a structured paper record from the research abstract below. Return valid JSON with id, title, authors, published, primary_category, categories, url, and summary.
Title: Protein structure prediction using the evolutionary algorithm USPEX.
Authors: Pavel Rachitskii, Ivan Kruglov, Alexei V Finkelstein, Artem R Og... | {
"id": "36780132",
"title": "Protein structure prediction using the evolutionary algorithm USPEX.",
"authors": [
"Pavel Rachitskii",
"Ivan Kruglov",
"Alexei V Finkelstein",
"Artem R Oganov"
],
"published": "2023 Jul",
"primary_category": "Proteins",
"categories": [
"Journal Article",
... | [
{
"role": "user",
"content": "Extract a structured paper record from the research abstract below. Return valid JSON with id, title, authors, published, primary_category, categories, url, and summary.\n\nTitle: Protein structure prediction using the evolutionary algorithm USPEX.\nAuthors: Pavel Rachitskii, I... |
pubmed | 36780132 | citation-generation | Generate a BibTeX citation for the paper described below.
Title: Protein structure prediction using the evolutionary algorithm USPEX.
Authors: Pavel Rachitskii, Ivan Kruglov, Alexei V Finkelstein, Artem R Oganov
Published: 2023 Jul
Updated: 2023 Jul
Primary category: Proteins
Categories: Journal Article, Research Supp... | @article{pmid36780132,
title={Protein structure prediction using the evolutionary algorithm USPEX.},
author={Pavel Rachitskii and Ivan Kruglov and Alexei V Finkelstein and Artem R Oganov},
journal={Proteins},
year={2023}
} | [
{
"role": "user",
"content": "Generate a BibTeX citation for the paper described below.\n\nTitle: Protein structure prediction using the evolutionary algorithm USPEX.\nAuthors: Pavel Rachitskii, Ivan Kruglov, Alexei V Finkelstein, Artem R Oganov\nPublished: 2023 Jul\nUpdated: 2023 Jul\nPrimary category: Pro... |
pubmed | 34759384 | metadata-extraction | Extract a structured paper record from the research abstract below. Return valid JSON with id, title, authors, published, primary_category, categories, url, and summary.
Title: The trRosetta server for fast and accurate protein structure prediction.
Authors: Zongyang Du, Hong Su, Wenkai Wang, Lisha Ye, Hong Wei, Zhenl... | {
"id": "34759384",
"title": "The trRosetta server for fast and accurate protein structure prediction.",
"authors": [
"Zongyang Du",
"Hong Su",
"Wenkai Wang",
"Lisha Ye",
"Hong Wei",
"Zhenling Peng",
"Ivan Anishchenko",
"David Baker",
"Jianyi Yang"
],
"published": "2021 Dec... | [
{
"role": "user",
"content": "Extract a structured paper record from the research abstract below. Return valid JSON with id, title, authors, published, primary_category, categories, url, and summary.\n\nTitle: The trRosetta server for fast and accurate protein structure prediction.\nAuthors: Zongyang Du, Ho... |
pubmed | 34759384 | citation-generation | Generate a BibTeX citation for the paper described below.
Title: The trRosetta server for fast and accurate protein structure prediction.
Authors: Zongyang Du, Hong Su, Wenkai Wang, Lisha Ye, Hong Wei, Zhenling Peng, Ivan Anishchenko, David Baker, Jianyi Yang
Published: 2021 Dec
Updated: 2021 Dec
Primary category: Nat... | @article{pmid34759384,
title={The trRosetta server for fast and accurate protein structure prediction.},
author={Zongyang Du and Hong Su and Wenkai Wang and Lisha Ye and Hong Wei and Zhenling Peng and Ivan Anishchenko and David Baker and Jianyi Yang},
journal={Nature protocols},
year={2021}
} | [
{
"role": "user",
"content": "Generate a BibTeX citation for the paper described below.\n\nTitle: The trRosetta server for fast and accurate protein structure prediction.\nAuthors: Zongyang Du, Hong Su, Wenkai Wang, Lisha Ye, Hong Wei, Zhenling Peng, Ivan Anishchenko, David Baker, Jianyi Yang\nPublished: 20... |
SCBE Research Training Package
This package was generated from live pubmed pulls for the query protein structure prediction and is meant for
lightweight Hugging Face dataset and SFT experiments.
Files
papers.jsonl: normalized raw research recordssft_train.jsonl: train split for instruction-style taskssft_validation.jsonl: validation splitdataset_manifest.json: build metadataresearch_report.md: generated paper/report artifact
Counts
- Raw papers:
5 - Train rows:
10 - Validation rows:
0 - Tasks per paper:
metadata-extraction,citation-generation
Lead Papers
- Evolutionary-scale prediction of atomic-level protein structure with a language model. (
36927031) - Protein Structure Prediction: Conventional and Deep Learning Perspectives. (
34050498) - Integrated structure-based protein interface prediction. (
35879651) - Protein structure prediction using the evolutionary algorithm USPEX. (
36780132) - The trRosetta server for fast and accurate protein structure prediction. (
34759384)
Schema
Raw records include id, title, authors, primary_category, categories, published,
updated, summary, url, pdf_url, and a text field suitable for indexing.
SFT rows include instruction, response, messages, source_id, and task.
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