iCite Database Snapshot 2023-08

This is a database snapshot of the iCite web service (provided here as a single zipped CSV file, or compressed, tarred JSON files). In addition, citation links in the NIH Open Citation Collection are provided as a two-column CSV table in open_citation_collection.zip. iCite provides bibliometrics and metadata on publications indexed in PubMed, organized into three modules: <br> Influence: Delivers metrics of scientific influence, field-adjusted and benchmarked to NIH publications as the baseline. <br> Translation: Measures how Human, Animal, or Molecular/Cellular Biology-oriented each paper is; tracks and predicts citation by clinical articles <br> Open Cites: Disseminates link-level, public-domain citation data from the NIH Open Citation Collection <br> Definitions for individual data fields: <br> pmid: PubMed Identifier, an article ID as assigned in PubMed by the National Library of Medicine <br> doi: Digital Object Identifier, if available <br> year: Year the article was published <br> title: Title of the article <br> authors: List of author names <br> journal: Journal name (ISO abbreviation) <br> is_research_article: Flag indicating whether the Publication Type tags for this article are consistent with that of a primary research article <br> relative_citation_ratio: Relative Citation Ratio (RCR)--OPA's metric of scientific influence. Field-adjusted, time-adjusted and benchmarked against NIH-funded papers. The median RCR for NIH funded papers in any field is 1.0. An RCR of 2.0 means a paper is receiving twice as many citations per year than the median NIH funded paper in its field and year, while an RCR of 0.5 means that it is receiving half as many citations per year. Calculation details are documented in Hutchins et al., PLoS Biol. 2016;14(9):e1002541. <br> provisional: RCRs for papers published in the previous two years are flagged as "provisional", to reflect that citation metrics for newer articles are not necessarily as stable as they are for older articles. Provisional RCRs are provided for papers published previous year, if they have received with 5 citations or more, despite being, in many cases, less than a year old. All papers published the year before the previous year receive provisional RCRs. The current year is considered to be the NIH Fiscal Year which starts in October. For example, in July 2019 (NIH Fiscal Year 2019), papers from 2018 receive provisional RCRs if they have 5 citations or more, and all papers from 2017 receive provisional RCRs. In October 2019, at the start of NIH Fiscal Year 2020, papers from 2019 receive provisional RCRs if they have 5 citations or more and all papers from 2018 receive provisional RCRs. <br> citation_count: Number of unique articles that have cited this one <br> citations_per_year: Citations per year that this article has received since its publication. If this appeared as a preprint and a published article, the year from the published version is used as the primary publication date. This is the numerator for the Relative Citation Ratio. <br> field_citation_rate: Measure of the intrinsic citation rate of this paper's field, estimated using its co-citation network. <br> expected_citations_per_year: Citations per year that NIH-funded articles, with the same Field Citation Rate and published in the same year as this paper, receive. This is the denominator for the Relative Citation Ratio. <br> nih_percentile: Percentile rank of this paper's RCR compared to all NIH publications. For example, 95% indicates that this paper's RCR is higher than 95% of all NIH funded publications. <br> human: Fraction of MeSH terms that are in the Human category (out of this article's MeSH terms that fall into the Human, Animal, or Molecular/Cellular Biology categories) <br> animal: Fraction of MeSH terms that are in the Animal category (out of this article's MeSH terms that fall into the Human, Animal, or Molecular/Cellular Biology categories) <br> molecular_cellular: Fraction of MeSH terms that are in the Molecular/Cellular Biology category (out of this article's MeSH terms that fall into the Human, Animal, or Molecular/Cellular Biology categories) <br> x_coord: X coordinate of the article on the Triangle of Biomedicine <br> y_coord: Y Coordinate of the article on the Triangle of Biomedicine <br> is_clinical: Flag indicating that this paper meets the definition of a clinical article. <br> cited_by_clin: PMIDs of clinical articles that this article has been cited by. <br> apt: Approximate Potential to Translate is a machine learning-based estimate of the likelihood that this publication will be cited in later clinical trials or guidelines. Calculation details are documented in Hutchins et al., PLoS Biol. 2019;17(10):e3000416. <br> cited_by: PMIDs of articles that have cited this one. <br> references: PMIDs of articles in this article's reference list. <br> Large CSV files are zipped using zip version 4.5, which is more recent than the default unzip command line utility in some common Linux distributions. These files can be unzipped with tools that support version 4.5 or later such as 7zip. <br> Comments and questions can be addressed to [e-mail]

本数据集为iCite网页服务的数据库快照，提供形式为单个压缩CSV文件，或经tar打包压缩的JSON文件。此外，NIH开放引用集合中的引用链接以双列CSV表格形式存放在open_citation_collection.zip中。

iCite为PubMed收录的文献提供文献计量学指标与元数据，分为三大模块：
影响力模块：提供经领域校正、以NIH资助文献为基准的科学影响力计量指标。
转化模块：评估每篇文献偏向人类、动物还是分子/细胞生物学的程度；追踪并预测临床文章对其的引用情况。
开放引用模块：发布来自NIH开放引用集合的链接级公共领域引用数据。

以下为各数据字段的定义：
pmid: PubMed标识符（PubMed Identifier），即美国国家医学图书馆在PubMed中分配的文章ID。
doi: 数字对象标识符（Digital Object Identifier），若可用则提供。
year: 文献发表年份
title: 文献标题
authors: 作者姓名列表
journal: 期刊名称（ISO缩写形式）
is_research_article: 标记字段，用于指示该文章的文献类型标签是否符合原创研究文章的范畴。
relative_citation_ratio: 相对引用比率（Relative Citation Ratio，RCR）——OPA的科学影响力计量指标。该指标经领域与时序校正，并以NIH资助文献为基准。任一领域内NIH资助文献的RCR中位数为1.0：若RCR为2.0，则该文章每年获得的引用量为其所在领域与发表年份对应的NIH资助文献中位数的2倍；若RCR为0.5，则仅为中位数的一半。该指标的计算细节详见Hutchins等人发表于PLoS Biol. 2016;14(9):e1002541的研究。
provisional: 发表于前两年的文献的RCR会被标记为"临时"，以反映较新文献的引用计量指标稳定性不如老旧文献。若前一年发表的文献获得至少5次引用，即便其发表时长不足一年，也会提供临时RCR；所有早于前一年的文献均会被赋予临时RCR。当前年度以NIH财年（始于每年10月）为准。例如，在2019年7月（NIH 2019财年），2018年发表且引用量≥5次的文献将被标记临时RCR，且所有2017年发表的文献均会获得临时RCR。2019年10月，即NIH 2020财年伊始，2019年发表且引用量≥5次的文献将被标记临时RCR，所有2018年发表的文献均会获得临时RCR。
citation_count: 引用该文献的唯一文章数量
citations_per_year: 该文献自发表以来每年平均获得的引用量。若该文献同时以预印本与正式发表版本形式存在，则以正式版本的发表年份作为主要出版日期。该指标为相对引用比率的分子项。
field_citation_rate: 该文献所属领域的固有引用率，通过其共引网络估算得到。
expected_citations_per_year: 与该文献具有相同领域引用率且发表年份一致的NIH资助文献每年平均获得的引用量。该指标为相对引用比率的分母项。
nih_percentile: 该文献的RCR在所有NIH资助文献中的百分位排名。例如，95%表示该文献的RCR高于95%的NIH资助文献。
human: 该文献的医学主题词（Medical Subject Headings，MeSH）中属于人类类别的占比（统计范围限定为归入人类、动物或分子/细胞生物学科类别的MeSH术语）
animal: 该文献的医学主题词中属于动物类别的占比（统计范围同上）
molecular_cellular: 该文献的医学主题词中属于分子/细胞生物学科类别的占比（统计范围同上）
x_coord: 该文献在生物医学三角（Triangle of Biomedicine）可视化图中的X轴坐标
y_coord: 该文献在生物医学三角可视化图中的Y轴坐标
is_clinical: 标记字段，用于指示该文献符合临床文章的定义。
cited_by_clin: 引用该文献的临床文章的PubMed标识符列表
apt: 近似转化潜力（Approximate Potential to Translate，APT）是基于机器学习的评估指标，用于估算该文献在后续临床试验或指南中被引用的可能性。其计算细节详见Hutchins等人发表于PLoS Biol. 2019;17(10):e3000416的研究。
cited_by: 引用该文献的文章的PubMed标识符列表
references: 该文献参考文献列表中收录的文章的PubMed标识符列表

大型CSV文件使用zip 4.5版本进行压缩，该版本较部分常见Linux发行版默认的unzip命令行工具更新。可使用支持zip 4.5及以上版本的解压工具（如7zip）对这些文件进行解压。

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