Bibliometric Analysis of Single Cell Proteomics: 2012-2022

Note: The analyses were originated from citexs.com and I made several adjustments on the layout and content. For academic use only.

1.摘要
本文基于PubMed文献数据库,使用citexs赛特新思数据分析平台,对2012-01至2022-12关于 single cell 和 proteomics 研究进行文献分析及大数据挖掘,梳理该领域的发展历程,分析研究主题的热点变化等,将分析结果可视化,旨在对single cell 和 proteomics相关领域研究进行系统综述和趋势展望,探讨当前的研究动态及热点,挖掘分析尚需改进的内容,以期为后续研究提供参考。

2.数据来源
(1)数据来源于PubMed数据库
(2)时间跨度:2012-01至2022-12
(3)文献类型:article
(4)语种:English
(5)共检索到 1443 篇文献
(6)检索词:(single cell) AND (proteomics)

3.研究方法
本文采用文献计量学方法,以PubMed文献数据库为基础,使用citexs赛特新思数据分析平台,进行文献大数据挖掘,分别选择国家、机构、作者、关键词、期刊、关联疾病、关联基因等对象进行数据挖掘和分析,可视化呈现该领域的总趋势、分布情况、热点变化等。

4.1 年度发文趋势分析
以single cell 和 proteomics为关键词搜索,2012-01至2022-12的文献有 1443 篇,文献年均发文量132篇。如图1所示,2021达到年发文量顶峰310篇,2020增长率最快为42.33%,提示该领域的研究得到快速发展,处于快速上升阶段。

图1. 2012-01至2022-12 single cell 和 proteomics相关文献的年度发文趋势

4.2 研究国家分析
2012-01至2022-12,全球在 single cell 和 proteomics研究领域发文量前64的国家如图2所示, 在该领域发文量最多的国家是United States of America(606篇,42%),China(181篇,12.54%)和Germany(180篇,12.47%)位居第二和第三。

图2. 2012-01至2022-12 single cell 和 proteomics的研究国家分析

4.3 研究机构分析
2012-01至2022-12,全球在 single cell 和 proteomics 研究领域发文量前20的国家研究机构如图3所示,其中university of california和university of cambridge发文量占据前两名,分别发表了48篇和21篇,university of copenhagen发表了21篇,位于第三名。

图3. 2012-01至2022-12 single cell 和 proteomics的研究机构分析

4.4 研究作者分析
2012-01至2022-12,全球在 single cell 和 proteomics 研究领域发文量前30的作者见表1。该领域产出文献最多的作者是Richard D Smith,迄今为止一共发表21篇文献;Ying Zhu位居第二,发表了19篇文献;Ronald J Moore位居第三,已有14篇文献发表。 (声明:文献原始数据来源于pubmed,由于其部分机构缺失和部分杂志未收录,造成文章数量偏少,排名仅供参考!)

RankAuthorInstitute&countryNo.
1Richard D Smithunited states21
2Ying Zhuunited states19
3Ronald J Mooreunited states14
4Wei-jun Qianunited states13
5Rui Zhaounited states12
6Tao Liuunited states12
7Nikolai Slavovnortheastern university, united states11
8Cecilia Lindskoguppsala university, sweden10
9William B Chrislerunited states9
10Chia-feng Tsaiunited states8
11Jing Zhouunited states7
12Ryan T Kellyunited states7
13Tujin Shiunited states7
14Angus I Lamonduniversity of dundee, united kingdom6
15Anil K Shuklaunited states5
16Masanori Aikawabrigham and women’s hospital, united states5
17Ryan T Kellybrigham young university, united states5
18Fabian J Theisinstitute of computational biology, germany4
19Jesper V Olsenuniversity of copenhagen, denmark4
20Ling Zhonguniversity of new south wales, australia4
21Mark J Rafteryuniversity of new south wales, australia4
22Matthias Mannmax planck institute of biochemistry, germany4
23Paul D Piehowskiunited states4
24Romain Huguetunited states4
25Rong Fanyale university, united states4
26Sean Mackayunited states4
27Alexander Schmidtuniversity of basel, switzerland3
28Daniel Lopez-ferrerunited states3
29Fredrik Ponténuppsala university, sweden3
30Joshua N Adkinsunited states3
表1. 2012-01至2022-12 single cell 和 proteomics的研究作者分析

4.5 发文期刊分析
2012-01至2022-12,以single cell 和 proteomics为关键词搜索,检索出论文1443篇,发文量排名前30的期刊见图4,其中刊载文献量最多的期刊是J Proteome Res(84篇);Mol Cell Proteomics位居第二,刊载文献量60篇;Methods Mol Biol位居第三,刊载文献量54篇。

图4. 2012-01至2022-12 single cell 和 proteomics的发文期刊分析

4.6 关键词热点词频分析
论文关键词是对研究目的、研究对象、研究方法进行高度凝练与概括。基于关键词的分析能够反映某一研究领域某一时间段内主题演变趋势和研究热点。把single cell 和 proteomics作为为关键词搜索,时间跨度为2012-01至2022-12,如图5所示,出现频次前5的关键词分别是: proteomics,mass spectrometry,transcriptomics,metabolomics,single-cell proteomics.

图5. 2012-01至2022-12 single cell 和 proteomics的热点词频分析

4.7 关键词热度随时间变化分析
将2012-01至2022-12分为4个时间段,如图6表示与single cell 和 proteomics相关联的关键词词频在各个时间段的热度排名及排名变化情况。

图6. 2012-01至2022-12 single cell 和 proteomics不同时间段的热度排名及排名变化分析

4.8 关联基因分析
2012-01至2022-12,以single cell 和 proteomics为关键词搜索,检索出论文1443篇,如图7所示,其中文献量最多的TP53(95篇);EGFR位居第二,文献量为71篇;AKT1位居第三,文献量66篇。

图7. 2012-01至2022-12 single cell 和 proteomics关联基因分析

5.1 AI推荐文献
根据搜索关键词single cell 和 proteomics,综合文献被引用数、发表时间、年份、影响因子等条件,推荐出30篇文献,见表2。

TitleJournalIFPMID
1Single-cell proteomicsNat Methods28.54730573843
2A dream of single-cell proteomicsNat Methods28.54731406385
3Defining the carrier proteome limit for single-cell proteomicsNat Methods28.54733288958
4Single-Cell ProteomicsTrends Biochem Sci33653632
5In Situ Single Cell Proteomics Reveals Circulating Tumor Cell Heterogeneity during TreatmentACS Nano15.88134225455
6Scaling Up Single-Cell ProteomicsMol Cell Proteomics34808355
7Multiplexed single-cell proteomics using SCoPE2Nat Protoc34716448
8Single-cell proteomics takes centre stageNature34545225
9Ultrasensitive single-cell proteomics workflow identifies >1000 protein groups per mammalian cellChem Sci9.82534163866
10Single-Cell Proteomics Reveal that Quantitative Changes in Co-expressed Lineage-Specific Transcription Factors Determine Cell FateCell Stem Cell24.63330880026
11Single-Cell Proteomics for Cancer ImmunotherapyAdv Cancer Res6.24229941105
12Single-cell Proteomics: Progress and ProspectsMol Cell Proteomics32847821
13Driving Single Cell Proteomics Forward with InnovationJ Proteome Res34597050
14Single-cell proteomics reveals changes in expression during hair-cell developmentElife8.14031682227
15Transformative Opportunities for Single-Cell ProteomicsJ Proteome Res4.46629945450
16Single-cell proteomics: A treasure trove in neurobiologyBiochim Biophys Acta Proteins Proteom33845200
17Mass Spectrometry-Based Analytical Strategy for Single-Cell ProteomicsMethods Mol Biol34905166
18Features of Peptide Fragmentation Spectra in Single-Cell ProteomicsJ Proteome Res34920664
19Quantitative Accuracy and Precision in Multiplexed Single-Cell ProteomicsAnal Chem34967612
20Spatial proteomics: a powerful discovery tool for cell biologyNat Rev Mol Cell Biol94.44430659282
21Single-cell transcriptomics combined with interstitial fluid proteomics defines cell type-specific immune regulation in atopic dermatitisJ Allergy Clin Immunol10.79332344053
22Microfluidic Single-Cell Proteomics Assay Chip: Lung Cancer Cell Line Case StudyMicromachines (Basel)34683198
23Advancing single-cell proteomics and metabolomics with microfluidic technologiesAnalyst4.61630351310
24Replication of single-cell proteomics data reveals important computational challengesExpert Rev Proteomics34602016
25Single Cell Proteomics Using Multiplexed Isobaric Labeling for Mass Spectrometric AnalysisMethods Mol Biol34766268
26In-Depth Mass Spectrometry-Based Single-Cell and Nanoscale ProteomicsMethods Mol Biol33165848
27A deeper look at carrier proteome effects for single-cell proteomicsCommun Biol35194133
28Imaging the future: the emerging era of single-cell spatial proteomicsFEBS J33351222
29An atlas of the aging lung mapped by single cell transcriptomics and deep tissue proteomicsNat Commun14.91930814501
30Microchip-based single-cell functional proteomics for biomedical applicationsLab Chip6.79928280819
表2. 2012-01至2022-12 与 single cell 和 proteomics相关的AI推荐文献

5.2 经典文献
基于AI推荐文献共引用关系筛选出经典文献30篇,见表3。

TitleJournalIFPMID
1Multiplexed protein quantitation in Saccharomyces cerevisiae using amine-reactive isobaric tagging reagentsMol Cell Proteomics5.91115385600
2Cytoscape: a software environment for integrated models of biomolecular interaction networksGenome Res9.04314597658
3Systematic and integrative analysis of large gene lists using DAVID bioinformatics resourcesNat Protoc19131956
4Protocol for micro-purification, enrichment, pre-fractionation and storage of peptides for proteomics using StageTipsNat Protoc13.49117703201
5Large-scale analysis of the yeast proteome by multidimensional protein identification technologyNat Biotechnol54.90811231557
6Tandem mass tags: a novel quantification strategy for comparative analysis of complex protein mixtures by MS/MSAnal Chem6.98612713048
7Global quantification of mammalian gene expression controlNature21593866
8Single-cell proteomic chip for profiling intracellular signaling pathways in single tumor cellsProc Natl Acad Sci U S A22203961
9The Perseus computational platform for comprehensive analysis of (prote)omics dataNat Methods28.54727348712
10MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantificationNat Biotechnol54.90819029910
11Mass spectrometry-based proteomicsNature49.96212634793
12Nanodroplet processing platform for deep and quantitative proteome profiling of 10-100 mammalian cellsNat Commun14.91929491378
13Ultrasensitive proteome analysis using paramagnetic bead technologyMol Syst Biol11.42925358341
14Proteomics. Tissue-based map of the human proteomeScience47.72825613900
15Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter DropletsCell41.58226000488
16Andromeda: a peptide search engine integrated into the MaxQuant environmentJ Proteome Res4.46621254760
17Skyline: an open source document editor for creating and analyzing targeted proteomics experimentsBioinformatics20147306
18Highly multiplexed imaging of tumor tissues with subcellular resolution by mass cytometryNat Methods24584193
19Universal sample preparation method for proteome analysisNat Methods19377485
20Single-Cell Mass Spectrometry for Discovery Proteomics: Quantifying Translational Cell Heterogeneity in the 16-Cell Frog (Xenopus) EmbryoAngew Chem Int Ed Engl15.33626756663
21Mass Cytometry: Single Cells, Many FeaturesCell27153492
22SCoPE-MS: mass spectrometry of single mammalian cells quantifies proteome heterogeneity during cell differentiationGenome Biol13.58330343672
23Single-cell mass cytometry of differential immune and drug responses across a human hematopoietic continuumScience21551058
24Quantitative analysis of complex protein mixtures using isotope-coded affinity tagsNat Biotechnol54.90810504701
25Single-cell western blottingNat Methods24880876
26The PRIDE database and related tools and resources in 2019: improving support for quantification dataNucleic Acids Res16.97130395289
27The MaxQuant computational platform for mass spectrometry-based shotgun proteomicsNat Protoc13.49127809316
28Stable isotope labeling by amino acids in cell culture, SILAC, as a simple and accurate approach to expression proteomicsMol Cell Proteomics5.91112118079
29An approach to correlate tandem mass spectral data of peptides with amino acid sequences in a protein databaseJ Am Soc Mass Spectrom24226387
30Accurate proteome-wide label-free quantification by delayed normalization and maximal peptide ratio extraction, termed MaxLFQMol Cell Proteomics24942700
表3. 2012-01至2022-12 与 single cell 和 proteomics相关的经典文献

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