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| 1 | Discovery of laryngeal carcinoma by serum proteomic pattern analysis显示文摘Laryngeal carcinoma is the most common malignancy among head and neck tu-mors. The purpose of this study is to find biomarkers for laryngeal carcinoma in patient blood serum using the Surface Enhanced Laser Desorption/Ionization (SELDI) technique. Serum samples from 33 laryngeal carcinoma (12 cases of glottis, 18 of supraglottis and 3 of subglottis) patients and 31 age- and sex-matched healthy people were analyzed by SELDI-TOF on a Pro-teinChip reader, PBSII-C. Protein profiles were generated using WCX2 protein chips. Protein peak clustering and classification analyses were performed utilizing the Biomarker Wizard and Biomarker Pattern software packages, respectively. The results showed that sixteen peaks had significant difference between laryngeal cancer patients and healthy group, eight of which were up-regulated in the patient samples, and the others were down-regulated. Two protein peaks 8153 Da and 2035 Da were automatically chosen for the system training and development of a classification tree. The analysis yielded a correct percentage of 96.9% for patients and 96.7% for control. The results suggest that serum is a useful resource for the detection of specific bio-markers for laryngeal carcinoma. Proteinchip Array System was a useful tool for a high throughput screening of large-sized serum samples to discover potential biomarkers for carci-noma. | XIAO Xueyuan1, ZHAO Xiaodong2, LIU Jiankai3, GUO Fuzheng1, LIU Danhui1 & HE Dacheng1 1. Key Laboratory for Cell Proliferation and Regulation Biology, Ministry of Education, Beijing Normal University, Universities?Confeder-ated Institute of Proteomics, Beijing 100875, China 2. Department of Otolaryngology-Head and Neck Surgery, Third Affiliated Hospital, Jilin University, Changchun 130031, China 3. Department of Biochemistry, Jilin University, Changchun 130021, China | 2004 | Science China(Life Sciences)2004，47，3： | 22 |
| 2 | Proteomics in China:Ready for prime time显示文摘Proteomics is a newborn science focusing on the comprehensive systematic analysis of all proteins in molecule machineries,organelles,cells,tissues,organs or intact organisms.It has been becoming one of the focuses in life sciences and cutting-edge techniques in biotechnologies in the 21st century.During the last decade,proteomics in China has developed much faster than other developing fields in the life sciences.This review article briefly retrospects the origin and development of proteomics in China,and provides an overview of representative scientific progress and perspectives. | GAO Xue1,ZHANG XueLi1,ZHENG JunJie1 & HE FuChu1,2 1 State Key Laboratory of Proteomics,Beijing Proteome Research Center,Beijing Institute of Radiation Medicine,Beijing 102206,China 2 Institutes of Biomedical Sciences,Fudan University,Shanghai 200032,China | 2010 | Science China(Life Sciences)2010，53，1： | 10 |
| 3 | Discovery and identification of Serum Amyloid A protein elevated in lung cancer serum显示文摘Two hundred and eighteen serum samples from 175 lung cancer patients and 43 healthy individuals were analyzed by using Surface Enhaced Laser Desorption/Ionization Time of Flight Mass Spectrome- try (SELDI-TOF-MS). The data analyzed by both Biomarker Wizard? and Biomarker Patterns? software showed that a protein peak with the molecular weight of 11.6 kDa significantly increased in lung cancer. Meanwhile,the level of this biomarker was progressively increased with the clinical stages of lung cancer. The candidate biomarker was then obtained from tricine one-dimensional sodium dodecyl sul- fate-polyacrylamide gel electrophoresis by matching the molecular weight with peaks on WCX2 chips and was identified as Serum Amyloid A protein (SAA) by MALDI/MS-MS and database searching. It was further validated in the same serum samples by immunoprecipitation with commercial SAA antibody. To confirm the SAA differential expression in lung cancer patients, the same set of serum samples was measured by ELISA assay. The result showed that at the cutoff point 0.446(OD value)on the Receiver Operating Characteristic (ROC) curve, SAA could better discriminate lung cancer from healthy indi- viduals with sensitivity of 84.1% and specificity of 80%. These findings demonstrated that SAA could be characterized as a biomarker related to pathological stages of lung cancer. | DAI SongWei1,2, WANG XiaoMin1,2, LIU LiYun1,2, LIU JiFu3, WU ShanShan3, HUANG LingYun1,2, XIAO XueYuan1,2 & HE DaCheng1,2 1 Key Laboratory of Cell Proliferation and Regulation of Ministry of Education, Beijing Normal University, Beijing 100875, China 2 Universities’ Confederated Institute of Proteomics, Beijing 100875, China 3 Department of Thoracic Surgery, General Hospital of Beijing Unit, PLA, Beijing 100500, China | 2007 | Science China(Life Sciences)2007，50，3： | 10 |
| 4 | The Epitope Study on the SARS-CoV Nucleocapsid Protein显示文摘The nucleocapsid protein (N protein) has been found to be an antigenic protein in a number of coronaviruses. Whether the N protein in severe acute respiratory syndrome-associated coronavirus (SARS-CoV) is antigenic remains to be elucidated. Using Western blot and Enzyme-linked Immunosorbent Assay (ELISA),the recombinant N proteins and the synthesized peptides derived from the N protein were screened in sera from SARS patients. All patient sera in this study displayed strong positive immunoreactivities against the recombinant N proteins,whereas normal sera gave negative immunoresponses to these proteins, indicating that the N protein of SARS-CoV is an antigenic protein. Furthermore, the epitope sites in the N protein were determined by competition experiments, in which the recombinant proteins or the synthesized peptides competed against the SARS-CoV proteins to bind to the antibodies raised in SARS sera. One epitope site located at the C-terminus was confirmed as the most antigenic region in this protein. A detailed screening of peptide with ELISA demonstrated that the amino sequence from Codons 371 to 407 was the epitope site at the C-terminus of the N protein. Understanding of the epitope sites could be very significant for developing an effective diagnostic approach to SARS. | Shuting Li, Liang Lin, Hao Wang, Jianning Yin, Yan Ren, Zhe Zhao, Jie Wen, Cuiqi Zhou, Xumin Zhang, Xiaolei Li, Jingqiang Wang, Zhengfeng Zhou, Jinxiu Liu, Jianmin Shao, Tingting Lei, Jianqiu Fang, Ningzhi Xu, and Siqi LiuBeijing Genomics Institute, Chinese Academy of Sciences, Beijing 101300, China & Beijing Proteomics Institute, Beijing 101300, China | 2003 | Genomics, Proteomics & Bioinformatics2003，1，3： | 9 |
| 5 | Detection of hybridization of protein microarrays using an oblique-incidence reflectivity difference method显示文摘Mouse-Immunoglobulin G(mouse-IgG) with different concentrations in a range from 1000 to 0.0128 μg/mL and a specific hybridization with goat anti-mouse IgG were detected successfully by using an oblique-incidence reflectivity difference(OI-RD) method.Two detection signals,consisting of an imaginary part(Im{Δp-Δs}) and a real part(Re{Δp-Δs}) of OI-RD,were obtained simultaneously.The detection results of hybridization by OI-RD were in accord with that of traditional fluorescent scans.In particular,we label-freely detected the washed mouse-IgG microarray with a series of concentrations and acquired a linear correlation between OI-RD intensities and the protein concentrations in logarithmic coordinates.The detection sensitivity of OI-RD can reach 14 fg.These experimental results suggest that the OI-RD method has potential applications in proteomics and clinical diagnosis. | LU Heng1,WEN Juan1,WANG Xu1,YUAN Kun1,LU HuiBin1,ZHOU YueLiang1,JIN Kui-Juan1,YANG GuoZhen1*,LI Wei2 & RUAN KangCheng2* 1 Beijing National Laboratory for Condensed Matter Physics,Institute of Physics,Chinese Academy of Sciences,Beijing 100190,China 2 Key Laboratory of Proteomics,Institute of Biochemistry and Cell Biology,Shanghai Institutes for Biological Sciences,Chinese Academy of Sciences,Shanghai 200031,China | 2010 | Science China(Physics,Mechanics & Astronomy)2010，53，7： | 8 |
| 6 | Label-free detection of hybridization of oligonucleotides by oblique-incidence reflectivity difference method显示文摘The microarrays of 20-base oligonucleotide with different concentrations are detected before and after hybridization by the oblique-incidence reflectivity difference (OI-RD) method. The experimental results prove that OI-RD is a label-free method which can not only distinguish the concentration difference of oligonucleotides before and after the hybridization but also detect the hybridization of short oligonucleotides. At present the OI-RD method can detect 0.39 μmol/L 20-base oligonucleotide or less. These results suggest that the OI-RD method is a promising and potential technique for label-free detection of biological microarrays. | YUAN Kun1, WANG Xu1, LU Heng1, WEN Juan1, LU HuiBin1*, ZHOU YueLiang1, JIN Kui-Juan1, YANG GuoZhen1, LI Wei2 & RUAN KangCheng2* 1 Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing 100190, China 2 Key Laboratory of Proteomics, Institute of Biochemistry and Cell Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200031, China | 2010 | Science China(Physics,Mechanics & Astronomy)2010，53，8： | 8 |
| 7 | Purification and characterization of Moschatin, a novel type Ⅰ ribosomeinactivating protein from the mature seeds of pumpkin (Cucurbita moschata), and preparation of its immunotoxin against human melanoma cells显示文摘A novel ribosome-inactivating protein designated Moschatin from the mature seeds of pumpkin (Cucurbita moschata) has been successively purified to homogeneity, using ammonium sulfate precipitation, CM-cellulose 52 column chromatography, Blue Sepharose CL-6B Affinity column chromatography and FPLC size-exclusion column chromatography. Moschatin is a type 1 RIP with a pI of 9.4 and molecular weight of-29 kD. It is a rRNA Nglycosidase and potently blocked the protein synthesis in the rabbit reticulocyte lysate with a ICs0 of 0.26 nM. Using the anti-human melanoma McAb Ng76, a novel immunotoxin Moschatin-Ng76 was prepared successfully and it efficiently inhibited the growth of targeted melanoma cells M21 with a IC50 of 0.04 nM, 1500 times lower than that of free Moschatin. The results implied that Moschatin could be used as a new potential anticancer agent. | HENG CHUAN XIA, FENG LI, ZHEN LI, Zu CHUAN ZHANG~* Key Laboratory of Proteomics, Institute of Biochemistry and Cell Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200031, China. | 2003 | Cell Research2003，13，5： | 8 |
| 8 | The role of Smad signaling in vascular and hematopoietic development revealed by studies using genetic mouse models显示文摘Smads are intracellular mediators of transforming growth factor β (TGF-β) superfamily signaling. In this review, we focus on the genetic mouse models for Smad pathways, which have provided functional evidence regarding the complex circuitry in angiogenesis and hematopoiesis during development. In the early stages of vascular development, TGF-β signaling is a contri buting factor in angiogenesis and vascular maturation. Whereas in the later embryogenesis, selected molecules of Smad pathways, such as TGF-β type II receptor (TbRII), ALK5, and Smad5, seem to be dispensable for vessel morphogenesis and integrity. TGF-β signaling is not required in the induction of hematopoietic precursors from mesoderm, but inhibits the subsequent expansion of committed hematopoietic precursors. By contrast, bone morphogenetic protein 4 (BMP4) has long been acknowledged pivotal in mesoderm induction and hematopoietic commitment during development. However, recent genetic evidence shows the BMP4-ALK3 axis is not crucial for the formation of hematopoietic cells from FLK1+ mesoderm. Because of the highly redundant mechanisms within the Smad pathways, the precise role of the Smad signaling involved in vascular and hematopoietic development remains nebulous. The generation of novel cell lineage restricted Cre transgenes would shed new light on the future relevant investigations. | LAN Yu & YANG Xiao State Key Laboratory of Proteomics, Genetic Laboratory of Development and Diseases, Institute of Biotechnology, Beijing 100071, China | 2010 | Science China(Life Sciences)2010，53，4： | 4 |
| 9 | Detection of protein microarrays by oblique-incidence reflectivity difference technique显示文摘Biological microarrays with different proteins and different protein concentrations are detected without external labeling by an oblique-incidence reflectivity difference (OIRD) technique. The initial experiment results reveal that the intensities of OIRD signals can distinguish the different proteins and concentrations of protein. The OIRD technique promises feasible applications to life sciences for label-free and high-throughput detection. | WEN Juan1,LU Heng1,WANG Xu1,YUAN Kun1,L HuiBin1,ZHOU YueLiang1,JIN KuiJuan1,YANG GuoZhen1,LI Wei2 & RUAN KangCheng2 1 Beijing National Laboratory for Condensed Matter Physics,Institute of Physics,Chinese Academy of Sciences,Beijing 100190,China 2 Key Laboratory of Proteomics,Institute of Biochemistry and Cell Biology,Shanghai Institute for Biological Sciences,Chinese Academy of Sciences,Shanghai 200031,China | 2010 | Science China(Physics,Mechanics & Astronomy)2010，53，2： | 4 |
| 10 | Quantitative detection of ING1 mRNA under different gene regulation based on molecular beacon显示文摘The effects of drug treatment, gene transfection, and p53 RNA interference (RNAi) on level of ING1 mRNA in tumor cells were quantitatively detected with the help of ING1 molecular beacon (MB)/cRNA standard curve based on MB detection technology. Results showed that the level of ING1 mRNA could be upregulated by 5-FU treatment or ING1 transfection in low expression cell line of MCF-7 and be inhibited by silencing p53 with RNAi technology in normal expression cell line of CNE2. The level of ING1 varied from 7.7×10?16 to 53.4× 10?16 mol/μg total RNA of tumor cells. The results not only provided evidence for the regulation effects of gene expression but also were applied to investigat- ing the interaction of multigenes on signal transduc- tion pathway. | LIU Bin1,2,3,4, WANG Kemin1,2,3,4, XIAO Zhiqiang5,6, WANG Wei1,3,4, TAN Weihong1,2,3,4, SUN Yi5,6, TANG Hongxing1,3,4 & YANG Xiaohai1,3,41. State Key Laboratory of Chemo/Biosensing and Chemometrics, Hu- nan University, Changsha 410082, China 2. Life Science and Biotechnology Institute, Hunan University, Chang- sha 410082, China 3. Chemistry and Chemical Engineer College, Hunan University, Changsha 410082, China 4. Hunan Engineering Research Center for Bio-Nanotechnology, Hunan University, Changsha 410082, China 5. Medical Experiment Research Center, Xiangya Hospital, Central South University, Changsha 410008, China 6. Key Laboratory of Cancer Proteomics of Chinese Ministry of Health, Changsha 410008, China | 2006 | Chinese Science Bulletin2006，51，17： | 2 |
| 11 | Con A affinity glycoproteomics of normal human liver tissue显示文摘In order to establish the novel high throughput, high efficiency and low cost technological platform for the research of N-glycoproteomics, to resolve the significance of characteristic expression profile of glycoprotein and to find the proteins with biological functional importance, the glycoproteins with high-mannose core and the two antennary types were purified and enriched by the Con A affinity chromatography. Con A affinity protein expression profiles of normal human liver tissue were gener- ated by using SDS-PAGE, two-dimensional electrophoresis (2-DE) followed by fast fluorescence stain- ing based on multiplexed proteomics (MP) technology. 301 visible protein spots on the gel were de- tected and 85 of glycoproteins were further successfully identified via peptide mass fingerprinting (PMF) by a matrix assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF- MS/MS) and annotated to IPI databases. Identified glycoproteins definitely take part in the regulation of cell cycle and metabolic processes. The glycosylation sites were predicted with NetNGlyc 1.0 and NetOGlyc 3.1 software, meanwhile they were classified according to the geneontology methods. The construction of Con A affinity glycoprotein database of normal human liver tissue would contribute to the subsequent research. | SUN QiangLing1, LIU YinKun1, LU WenJing1, CHENG Gang2, ZHOU HaiJun1, ZHOU XinWen3, WEI LiMing3, DAI Zhi1, GUO Kun1 & LU HaoJie3 1 Liver Cancer Institute, Zhongshan Hospital, Fudan University, Shanghai 200032, China 2 System Biology Lab, Institute of Biomedical Sciences, Fudan University, Shanghai 200433, China 3 Research Center for Proteomics, Institute of Biomedical Sciences, Fudan University, Shanghai 200433, China | 2007 | Science China(Life Sciences)2007，50，3： | 2 |
| 12 | An integrated view of the correlations between genomic and phenomic variables显示文摘Genome sequencing opened the flood gate of '-omics' studies,among which the research about correlations between genomic and phenomic variables is an important part. With the development of functional genomics and systems biology,genome-wide investigation of the correlations between many genomic and phenomic variables became possible. In this review,five genomic variables,such as evolution rate(or 'age' of the gene) ,the length of intron and ORF(protein length) in one gene,the biases of amino acid composition and codon usage,along with the phenomic variables related to expression patterns(level and breadth) are focused on. In most cases,genes with higher mRNA/protein expression level tend to evolve slowly,have less intronic DNA,code for smaller proteins,and have higher biases of amino acid composition and codon usage. In addition,broadly expressed proteins evolve more slowly and are shorter than tissue-specific proteins. Studies in this field are helpful for deeper understanding the signatures of selection mediated by the features of gene expression and are of great significance to enrich the evolution theory. | Dong Yang,Ying Jiang,Fuchu He State Key Laboratory of Proteomics,Beijing Proteome Research Center,Beijing Institute of Radiation Medicine,Beijing 102206,China | 2009 | Journal of Genetics and Genomics2009，36，11： | 2 |
| 13 | N-glycosylation proteome of endoplasmic reticulum in mouse liver by ConA affinity chromatography coupled with LTQ-FT mass spectrometry显示文摘Glycosylation is the most versatile and one of the most significant protein post-translational modifications. It is generally classified into three categories according to the amino acid to which the glycan is attached: N-glycosylation, O-glycosylation and C-glycosylation. Synthesis of N-glycoproteins occurs in the rough endoplasmic reticulum (rER), and all N-glycoproteins synthesized in rER have uniform glycan endings with mannose (Man) and glucose (Glc). A systematic strategy was developed to comprehensively profile N-glycoproteins in complex biological samples. The lectin Concanvalin A (ConA), which has a high affinity for glycans ending with Man, was used to extract the N-glycoproteins synthesized or located in the rER, and identified the N-glycoproteins and their glycosylation sites by LTQ-FT MS. The analysis was repeated three times at both the biological sample and mass spectrometry levels. In total, 323 glycosylation sites on 212 N-glycoproteins were identified in the mouse liver. Of these, 131 were known N-glycoproteins in the Swissprot database. The identified N-glycoproteins were classified according to their cell location by the Swissprot database and GO software. The identified N-glycoproteins in this study would serve as a good complement to the N-glycoprotein database for the mouse liver. | SONG LiNa1, WANG JingLan1, LIU JinFeng1, LU Zhuang1,3, SUI ShaoHui1, JIA Wei1 , YANG Bing1, CHI Hao2, WANG LeHeng2, HE SiMin2, YU WenFeng1, MENG LingYan1, CHEN Shuo1, PENG Xu1, LIANG YiMin1, CAI Yun1 & QIAN XiaoHong1 1State Key Laboratory of Proteomics, Beijing Proteome Research Center, Beijing Institute of Radiation Medicine, Beijing 102206, China 2Institute of Computing Technology, Chinese Academy of Sciences, Beijing 100190, China 3Beijing Institute of Biotechnology, Beijing 100081, China | 2010 | Science China Chemistry2010，53，4： | 1 |
| 14 | Proteomics in genomeland显示文摘 | Fields S Proteomics | 2001 | Science2001，291，5507： | 1 |
| 15 | in drought tolerance in wheat 显示文摘 | Hajheidari M Eivazi A Buchanan B Proteomics uncovers a role for redox B | 2007 | J Proteome Res2007，6，4： | 1 |
| 16 | Proteomic analysis of the mitochondria from Caenorhabditis Elegans显示文摘Mitochondria are one of the most important organelles in a cell, playing essential roles in cell physiological processes including energy production, metabolism, ion homeostasis, aging | Jing Li, Tanxi Cai, Peng Wu, Ziyou Cui, Xiulan Chen, Junjie Hou, Zhensheng Xie, Peng Xue, Pingsheng Liu, Fuquan Yang Proteomic Platform & National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing, China, 100101 | 2009 | 生物物理学报2009，25，S1： | 1 |
| 17 | A Strategy for Searching Antigenic Regions in the SARS-CoV Spike Protein显示文摘In the face of the worldwide threat of severe acute respiratory syndrome (SARS)to human life, some of the most urgent challenges are to develop fast and accurate analytical methods for early diagnosis of this disease as well as to create a safe anti-viral vaccine for prevention. To these ends, we investigated the antigenicity of the spike protein (S protein), a major structural protein in the SARS-coronavirus (SARS-CoV). Based upon the theoretical analysis for hydrophobicity of the S protein, 18 peptides were synthesized. Using Enzyme-Linked Immunosorbent Assay (ELISA), these peptides were screened in the sera from SARS patients. According to these results, two fragments of the S gene were amplified by PCR and cloned into pET-32a. Both S fragments were expressed in the BL-21 strain and further purified with an affinity chromatography. These recombinant S fragments were confirmed to have positive cross-reactions with SARS sera, either by Western blot or by ELISA. Our results demonstrated that the potential epitope regions were located at Codons 469-882 in the S protein, and one epitope site was located at Codons 599-620. Identification of antigenic regions in the SARS-CoV S protein may be important for the functional studies of this virus or the development of clinical diagnosis. | Yan Ren, Zhengfeng Zhou, Jinxiu Liu, Liang Lin, Shuting Li, Hao Wang, Ji Xia, Zhe Zhao, Jie Wen, Cuiqi Zhou, Jingqiang Wang, Jianning Yin, Ningzhi Xu, and Siqi LiuBeijing Genomics Institute, Chinese Academy of Sciences, Beijing 101300, China & Beijing Proteomics Institute, Beijing 101300, China. | 2003 | Genomics, Proteomics & Bioinformatics2003，1，3： | 1 |
| 18 | eases显示文摘 | JUNGBLUT P R ZIMNY ARND T U ZEINDL EBERHAR T E Proteomics in human disease:cancer heart and infections dis | 1999 | Electrophoresis1999，20，10： | 1 |
| 19 | Proteomics ponders prime time显示文摘 | Service R F Proteomics | | 0，，5897： | 1 |
| 20 | Proteomics显示文摘 | Kratzer U Altenberend F Proteomic exploitation on prothymosin alpha-induced mononuclear cell activation | 2007 | 7(11):1814-18242007，7，11： | 1 |
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