| 文章题目 | 检索作者 | 期刊 | 时间 | 组学 | 检索单位 | 样本 | 研究方向 | DOI |
| Evaluating DIA LiP-MS Analysis Workflows with a Hybrid LiP Proteome Benchmark. | Liu H, Shen C | Analytical chemistry | 2026-07-01 | 蛋白质组 | 上海易算生物科技有限公司 | 合作发表 | 10.1021/acs.analchem.6c02411 | |
| Full-DIA enables complete single-cell proteomics from diaPASEF using deep learning. | Liu H, Shen C | Genome biology | 2026-04-21 | 单细胞蛋白质组、蛋白质组 | 上海易算生物科技有限公司 | 合作发表 | 10.1186/s13059-026-04087-x | |
| Plasma lipidomic signatures reveal age-associated patterns of septic shock risk and immune dysregulation in sepsis. | Wang L | Frontiers in immunology | 2025-11-19 | 脂质组 | 上海易算生物科技有限公司 | 合作发表 | 10.3389/fimmu.2025.1659425 | |
| OpenSpec Enables Detecting Unexpected Modifications from Proteomics Data Generated by Orbitrap Astral Mass Spectrometer. | Shen C, Wang X | Analytical chemistry | 2025-11-03 | 蛋白质组 | 上海易算生物科技有限公司 | 合作发表 | 10.1021/acs.analchem.5c03055 | |
| 快速血液样本前处理+质谱数据深度学习+血清标志物panel筛查策略 | ||||||||
| Rapid Sample Preparation Workflow for Serum Sample Analysis with Different Mass Spectrometry Acquisition Strategies | Xiaohui Liu | Anal Chem | 2021 Jan | 蛋白组 | 复旦 | 胰腺癌血清 | 血清快速样本前处理开发和应用 | 10.1021/acs.analchem.0c03985 |
| Rapid sample preparation workflow based on enzymatic nanoreactors for potential serum biomarker discovery in pancreatic cancer | Xiaohui Liu | Talanta | 2022 Feb | 蛋白组 | 复旦 | 胰腺癌血清 | 血清高通量样本前处理开发和应用 | 10.1016/j.talanta.2021.123018 |
| In silico spectral libraries by deep learning facilitate data-independent acquisition proteomics | Liang Qiao | Nat Commun | 2020 Jan | DIA蛋白组算法 | 复旦 | 胰腺癌血清 | DeepDIA基于深度学习生成谱图库 | 10.1038/s41467-019-13866-z |
| Circulating proteomic panels for risk stratification of intracranial aneurysm and its rupture. | Xiaohui Liu | EMBO Mol Med | 2022 Feb | 蛋白组、PRM | 复旦 | 颅内动脉瘤血清 | 颅内动脉瘤血清标志物panel筛查 | 10.15252/emmm.202114713 |
| Comprehensive mass spectrometry for development of proteomic biomarkers of intracranial aneurysms | Xiaohui Liu | Talanta | 2022 Apr | 蛋白组 | 复旦 | 颅内动脉瘤血清 | 颅内动脉瘤血清标志物panel筛查 | 10.1016/j.talanta.2021.123159 |
| The characterization of serum proteomics and metabolomics across the cancer trajectory in chronic hepatitis B-related liver diseases | Xiaohui Liu | VIEW | 2024 | 蛋白组、代谢组 | 复旦 | 肝癌血清 | 肝癌血清标志物panel筛查 | 10.1002/VIW.20240031 |
| 微量-单细胞-空间样本前处理+赛鹰微流控单细胞操控仪 | ||||||||
| Ultrasensitive Trace Sample Proteomics Unraveled the Protein Remodeling during Mesenchymal-Amoeboid Transition | Xiaohui Liu | Anal Chem | 2022 Jan | 微量蛋白组 | 复旦 | 迁移细胞 | 微量样本前处理开发和应用 空间限制条件下细胞的蛋白质组分析 | 10.1021/acs.analchem.1c03212 |
| In-depth and high-throughput spatial proteomics for whole-tissue slice profiling by deep learning-facilitated sparse sampling strategy | 贺福初 | Cell Discovery | 2025 | 极微量蛋白质组 | 国家蛋白质科学中心（北京） | 鼠脑切片激光显微切割条带 | 空间蛋白组新技术突破 | 10.1038/s41421-024-00764-y |
| Pick-up single-cell proteomic analysis for quantifying up to 3000 proteins in a Mammalian cell | Qun Fang | Nat Commun | 2024 Feb | 单细胞（所见即所得分选） | 浙大 | 迁移细胞 | 单细胞微流控液体处理机器人 | 10.1038/s41467-024-45659-4 |
| Single Cell-Pair Proteomics for Decoding lmmune-CancerCell interactions | Qun Fang | Advanced Science | 2025 | 单细胞（所见即所得分选） | 浙大 | 免疫-癌细胞对 | 微流控单细胞操控仪 | 10.1002/advs.202414769 |
| 微量磷酸化样本前处理+全蛋白多组学联合 | ||||||||
| An optogenetic-phosphoproteomic study reveals dynamic Akt1 signaling profiles in endothelial cells | Shisheng Wang, Yansheng Liu | Nat Commun | 2023 | 磷酸组 | 内皮细胞 | 光遗传学和磷酸组揭示内皮细胞中Akt1信号传导的动态特征 | 10.1038/s41467-023-39514-1 | |
| DeepFLR facilitates false localization rate control in phosphoproteomics | Liang Qiao | Nat Commun | 2023 Apr | 磷酸组 | 复旦、OMICSOLUTION | HeLa细胞 | 磷酸化位点定位错误率估计算法 DeepFLR | 10.1038/s41467-023-38035-1 |
| Rapid and High-Sensitive Phosphoproteomics Elucidated the Spatial Dynamics of the Mouse Brain. | Xiaohui Liu | Anal Chem | 2023 Jul | 微量磷酸组+全蛋白 | 复旦 | 小鼠冠状脑切片 | 微量磷酸化样本前处理开发 空间蛋白组及磷酸组的联合分析 | 10.1021/acs.analchem.3c01486 |
| Multidimensional Proteomic Landscape Reveals Distinct Activated Pathways Between Human Brain Tumors | Xiaohui Liu | Adv Sci (Weinh) | 2025 Feb | 微量磷酸组+全蛋白、N-糖肽 | 交大 OMICSOLUTION | 原发性和继发性脑癌和癌旁组织 | 人脑肿瘤多维度蛋白组学图谱构建 | 10.1002/advs.202410142 |
| 微生物菌群蛋白序列库构建策略+定量方法优化+各领域应用 | ||||||||
| Metaproteomics characterizes human gut microbiome function in colorectal cancer | Liang Qiao | npj Biofilms and Microbiomes | 2020 | 宏蛋白质组 | 复旦 | 14结直肠癌粪便vs14对照 | 肠菌蛋白功能变化与结直肠癌发病关联 | 10.1038/s41522-020-0123-4 |
| Quantitative metaproteomics reveals composition and metabolism characteristics of microbial communities in Chinese liquor fermentation starters | Liang Qiao | Front. Microbiol | 2023 | 宏蛋白质组 | 复旦 | 90例茅台酒曲 | 酒曲蛋白功能变化与发酵风味和香气关联 | 10.3389/fmicb.2022.1098268 |
| Metaproteomics profiling of the microbial communities in fermentation starters (Daqu) during multi-round production of Chinese liquor | Liang Qiao | Frontiers in Nutrition | 2023 | 宏蛋白质组、PRM | 复旦 | 42例茅台酒曲 | 酒曲蛋白功能变化与发酵风味和香气关联 | 10.3389/fnut.2023.1139836 |
| Data-independent acquisition boosts quantitative metaproteomics for deep characterization of gut microbiota | Liang Qiao | npj Biofilms and Microbiomes | 2023 | 宏蛋白质组（DIA vs TMT vs LFQ-DDA） | 复旦 | 轻度认知障碍粪便（MCI）、胰腺癌粪便（PC） | 质谱采集模式方法比较 脑肠轴研究，肠菌蛋白功能变化与发病关联 | 10.1038/s41522-023-00373-9 |
| High-Abundance Protein-Guided Hybrid Spectral Library for Data Independent Acquisition Metaproteomics | Liang Qiao | Anal Chem | 2023 | 宏蛋白质组HAP建库 | 复旦 | 粪便 | 人肠道内容物公共库构建 | 10.1021/acs.analchem.3c03255 |
| Contigs directed gene annotation (ConDiGA) for accurate protein sequence database construction in metaproteomics | Liang Qiao | Microbiome | 2024 | 宏蛋白质组ConDiGA建库 | 复旦 | 粪便 | 宏基因组注释优化建库 | 10.1186/s40168-024-01775-3 |
| 完整糖肽样本前处理+定性定量工具+生信分析云平台 | ||||||||
| Precise, Fast and Comprehensive Analysis of Intact Glycopeptides and Modified Saccharide Units with pGlyco3 | Weiqian Cao | Nature Methods | 2021 | 糖肽组 | 复旦、 OMICSOLUTION | 酵母 | 完整糖肽定性解析工具pGlyco3 | 10.1038/s41592-021-01306-0 |
| pGlycoQuant with a deep residual network for quantitative glycoproteomics at intact glycopeptide level | Weiqian Cao | Nature Communications | 2022 | 糖肽组 | 复旦、 OMICSOLUTION | 肝癌细胞系 | 完整糖肽定量分析工具pGlycoQuant | 10.1038/s41467-022-35172-x |
| GlycAP, a glycoproteomic analysis platform for site-specific N-glycosylation research | Weiqian Cao | Int J Mass Spectrom | 2022 | 糖肽组 | 复旦、 OMICSOLUTION | 多物种 | 完整糖肽在线分析平台GlycAP | 10.1016/j.ijms.2022.116947 |
| Uncovering missing glycans and unexpected fragments with pGlycoNovo for site-specific glycosylation analysis across species | Weiqian Cao, Chao Liu | Nature Communications | 2024 | 糖肽组 | 复旦、 OMICSOLUTION | 多物种 | 稀有糖型、缺乏糖库物种糖肽分析再进一步 | 10.1038/s41467-024-52099-7 |
| In-depth mapping of the mouse brain N-glycoproteome reveals widespread N-glycosylation of diverse brain proteins | Weiqian Cao | Oncotarget | 2016 | 糖肽组 | 复旦、 OMICSOLUTION | 小鼠脑组织 | 完整糖肽ZIC-HILIC富集策略 | 10.18632/oncotarget.9737 |
| 蛋白代谢多组学联合--标志物筛选文章经验 | ||||||||
| Proteomic and metabolomic features in patients with HCC responding to lenvatinib and anti-PD1 therapy | Feng Liu | Cell Rep | 2024 Mar | 蛋白组、代谢组等 | 复旦、 OMICSOLUTION | 肝癌血浆 | 肝癌治疗敏感分层 | 10.1016/j.celrep.2024.113877 |
| Proteomic and metabolomic analysis of plasma for pain at different labor stages | Kun Qian | Talanta | 2025 Jan | 蛋白组、代谢组 | 交大 | 纵向队列： 32名顺产妇女的185份血浆样本 | 分娩过程中疼痛和应激变化的分子变化 | 10.1016/j.talanta.2024.126905 |
| The characterization of serum proteomics and metabolomics across the cancer trajectory in chronic hepatitis B-related liver diseases | Xiaohui Liu | VIEW | 2024 | 蛋白组、代谢组 | 复旦 | 肝癌血清 | 肝癌血清标志物panel筛查 | 10.1002/VIW.20240031 |
| LC-MS/MS and SWATH based serum metabolomics enables biomarker discovery in pancreatic cancer | Xiaohui Liu | Clin Chim Acta | 2020 Jul | 蛋白组、代谢组 | 复旦 | 胰腺癌血清 | 肿瘤标志物 | 10.1016/j.cca.2020.03.043 |
| Multi-Omic Profiling of Multi-Biosamples Reveals the Role of Amino Acid and Nucleotide Metabolism in Endometrial Cancer | Liang Qiao | Front Oncol | 2022 Apr | 蛋白组、代谢组 | 复旦、 OMICSOLUTION | 子宫内膜组织（蛋白+代谢）、尿液和宫腔内刷检样本（代谢） | 通路相关早诊标志物 | 10.3389/fonc.2022.861142 |
| 其他分析工具或客户文章经验 | ||||||||
| High-resolution spatially resolved proteomics of complex tissues based on microfluidics and transfer learning | Guibing Wang | cell | 2025 | 蛋白组 | 国家蛋白质科学中心（北京） | 小鼠脑组织激光显微切割条带 | 空间蛋白组新技术突破 | 10.1016/j.cell.2024.12.023 |
| High spatial-resolved heat manipulating membrane heterogeneity alters cellular migration and signaling | Di Li | PNAS | 2023 | 蛋白组 | 华东师范 OMICSOLUTION | 细胞 | 细胞应对热扰动 | 10.1073/pnas.2312603120 |
| Proteomic landscape of primary and metastatic brain tumors for heterogeneity discovery | Xiaohui Liu | Proteomics Clin Appl | 2024 Mar | 蛋白组 | 复旦 | 原发性和转移性脑肿瘤组织 | 脑癌类型异质性研究 | 10.1002/prca.202300010 |
| Comprehensive Evaluation and Optimization of the Data-Dependent LC-MS/MS Workflow for Deep Proteome Profiling | Chao Liu, Chengpin Shen | Anal Chem | 2023 May | DDA | 北航、OMICSOLUTION | 开发MSRefine，47种深度指标评估和优化蛋白组工作流程性能 | 10.1021/acs.analchem.3c00338 | |
| Deep Learning Powers Protein Identification from Precursor MS Information | Liang Qiao | J. Proteome Res | 2024 | DDA | 复旦 | 大肠杆菌、血清、单细胞 | 基于深度学习提高DDA MS1鉴定能力 | 10.1021/acs.jproteome.4c00118 |
| In-depth mass spectrometry analysis of rhGH administration altered energy metabolism and steroidogenesis | Liang Qiao | Talanta | 2024 | 代谢组 | 复旦 | 健康男性血清、尿液 | 重组人生长激素（rhGH）注射前后代谢变化 | 10.1016/j.talanta.2023.125069 |
| WD repeat-containing protein 1 maintains β-Catenin activity to promote pancreatic cancer aggressiveness | Xiaohui Liu | Br J Cancer | 2020 Sep | 标记蛋白组 | 复旦 | 不同分期胰管腺癌组织 | 疾病进程相关蛋白 | 10.1038/s41416-020-0929-0 |
| Identification of transaldolase as a novel serum biomarker for hepatocellular carcinoma metastasis using xenografted mouse model and clinic samples. | Xiaohui Liu | Acta Pharmacol Sin | 2018 Sep | 标记蛋白组 | 复旦 | 仓鼠肝脏 | 天然产物潜在新靶蛋白 | 10.1016/j.canlet.2011.08.031 |
| Quantitative proteomic analysis identifies CPNE3 as a novel metastasis-promoting gene in NSCLC | Xiaohui Liu | J Proteome Res | 2013 Jul | 标记蛋白组 | 复旦 | 高与低转移潜能肺腺癌细胞 | 寻找癌细胞内与转移相关蛋白质 | 10.1021/pr400273z |
| iTRAQ quantitative proteomic analysis reveals the pathways for methanation of propionate facilitated by magnetite | Jingjing Wan | Water Res（11.5，Q1） | 2017 Jan | 标记蛋白组 | 复旦 | |||
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