NanoLC-FT-ICR MS improves proteome coverage attainable for approximately 3000 laser-microdissected breast carcinoma cells.


:Proteomics assays hold great promise for unraveling molecular events that underlie human diseases. Effective analysis of clinical samples is essential, but this task is considerably complicated by tissue heterogeneity. Laser capture microdissection (LCM) can be used to selectively isolate target cells from their native tissue environment. However, the small number of cells that is typically procured by LCM severely limits proteome coverage and biomarker discovery potential achievable by conventional proteomics platforms. Herein, we describe the use of nanoLC-FT-ICR MS for analyzing protein digests of 3000 LCM-derived tumor cells from breast carcinoma tissue, corresponding to 300 ng of total protein. A total of 2282 peptides were identified by matching LC-MS data to accurate mass and time (AMT) tag databases that were previously established for human breast (cancer) cell lines. One thousand and three unique proteins were confidently identified with two or more peptides. Based on gene ontology categorization, identified proteins appear to cover a wide variety of biological functions and cellular compartments. This work demonstrates that a substantial number of proteins can be detected and identified from limited number of cells using the AMT tag approach, and opens doors for high-throughput in-depth proteomics analysis of clinical samples.






Umar A,Luider TM,Foekens JA,Pasa-Tolić L




Has Abstract


2007-01-01 00:00:00












  • Version 4.0 of PaxDb: Protein abundance data, integrated across model organisms, tissues, and cell-lines.

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    authors: Wang M,Herrmann CJ,Simonovic M,Szklarczyk D,von Mering C

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    authors: Feng S,Pan C,Jiang X,Xu S,Zhou H,Ye M,Zou H

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    pub_type: 杂志文章


    authors: Trotter MW,Sadowski PG,Dunkley TP,Groen AJ,Lilley KS

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    pub_type: 杂志文章,评审


    authors: Bröker BM,van Belkum A

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    authors: van Breukelen B,Georgiou A,Drugan MM,Taouatas N,Mohammed S,Heck AJ

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  • Proteomic Analysis of Endothelial Cells Exposed to Ultrasmall Nanoparticles Reveals Disruption in Paracellular and Transcellular Transport.

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    pub_type: 杂志文章


    authors: Kuruvilla J,Bayat N,Cristobal S

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    pub_type: 杂志文章,评审


    authors: Bilbao A,Varesio E,Luban J,Strambio-De-Castillia C,Hopfgartner G,Müller M,Lisacek F

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    authors: Phadke ND,Molloy MP,Steinhoff SA,Ulintz PJ,Andrews PC,Maddock JR

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  • Protein sequence tags: a novel solution for comparative proteomics.

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    pub_type: 杂志文章


    authors: Kuhn K,Prinz T,Schäfer J,Baumann C,Schärfke M,Kienle S,Schwarz J,Steiner S,Hamon C

    更新日期:2005-06-01 00:00:00

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    pub_type: 杂志文章


    authors: Davis MT,Spahr CS,McGinley MD,Robinson JH,Bures EJ,Beierle J,Mort J,Yu W,Luethy R,Patterson SD

    更新日期:2001-01-01 00:00:00

  • In Silico Prediction and Validation of Novel RNA Binding Proteins and Residues in the Human Proteome.

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    pub_type: 杂志文章


    authors: Chowdhury S,Zhang J,Kurgan L

    更新日期:2018-11-01 00:00:00

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    pub_type: 杂志文章


    authors: Faure C,Morio B,Chafey P,Le Plénier S,Noirez P,Randrianarison-Huetz V,Cynober L,Aussel C,Moinard C

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    pub_type: 杂志文章


    authors: Zouambia M,Fischer DF,Hobo B,De Vos RA,Hol EM,Varndell IM,Sheppard PW,Van Leeuwen FW

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    pub_type: 杂志文章


    authors: Shin YK,Lee HJ,Lee JS,Paik YK

    更新日期:2006-02-01 00:00:00

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    authors: Orchard S,Hermjakob H,Taylor CF,Potthast F,Jones P,Zhu W,Julian RK Jr,Apweiler R

    更新日期:2005-09-01 00:00:00

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    pub_type: 杂志文章


    authors: Peng L,Kapp EA,Fenyö D,Kwon MS,Jiang P,Wu S,Jiang Y,Aguilar MI,Ahmed N,Baker MS,Cai Z,Chen YJ,Van Chi P,Chung MC,He F,Len AC,Liao PC,Nakamura K,Ngai SM,Paik YK,Pan TL,Poon TC,Salekdeh GH,Simpson RJ,Sirdesh

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    pub_type: 杂志文章


    authors: Park YD,Kim SY,Jang HS,Seo EY,Namkung JH,Park HS,Cho SY,Paik YK,Yang JM

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    pub_type: 杂志文章


    authors: Ro HS,Koh BH,Jung SO,Park HK,Shin YB,Kim MG,Chung BH

    更新日期:2006-04-01 00:00:00

  • Identification and mapping of human saphenous vein medial smooth muscle proteins by two-dimensional polyacrylamide gel electrophoresis.

    abstract::Changing smooth muscle phenotype and abnormal cell proliferation are important features of vascular pathology, including the failure of saphenous vein bypass grafts. We have characterised and mapped protein expression in human saphenous vein medial smooth muscle, using two-dimensional (2-D) polyacrylamide gel electrop...


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    authors: McGregor E,Kempster L,Wait R,Welson SY,Gosling M,Dunn MJ,Powel JT

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  • Quantitative proteomic analysis and functional studies reveal that nucleophosmin is involved in cell death in glioblastoma cell line transfected with siRNA.

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    authors: Gimenez M,Marie SK,Oba-Shinjo SM,Uno M,da Silva R,Laure HJ,Izumi C,Otake A,Chammas R,Rosa JC

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    pub_type: 杂志文章


    authors: Shekhova E,Ivanova L,Krüger T,Stroe MC,Macheleidt J,Kniemeyer O,Brakhage AA

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    pub_type: 杂志文章


    authors: Kwon KH,Kim M,Kim JY,Kim KW,Kim SI,Park YM,Yoo JS

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    pub_type: 杂志文章


    authors: Ahrendt AJ,Tollaksen SL,Lindberg C,Zhu W,Yates JR 3rd,Nevin KP,Babnigg G,Lovley DR,Giometti CS

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    pub_type: 杂志文章


    authors: Yu H,Hackenbroch L,Meyer FRL,Reiser J,Razzazi-Fazeli E,Nöbauer K,Besenfelder U,Vogl C,Brem G,Mayrhofer C

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    pub_type: 杂志文章


    authors: Höti N,Shah P,Hu Y,Yang S,Zhang H

    更新日期:2017-03-01 00:00:00

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    pub_type: 杂志文章


    authors: Makowski MM,Willems E,Fang J,Choi J,Zhang T,Jansen PW,Brown KM,Vermeulen M

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    pub_type: 杂志文章


    authors: Yan GR,Tan Z,Wang Y,Xu ML,Yu G,Li Y,He QY

    更新日期:2013-11-01 00:00:00

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    pub_type: 杂志文章


    authors: Hudelist G,Singer CF,Pischinger KI,Kaserer K,Manavi M,Kubista E,Czerwenka KF

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    pub_type: 杂志文章


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    pub_type: 杂志文章


    authors: Cadete VJ,Lin HB,Sawicka J,Wozniak M,Sawicki G

    更新日期:2012-08-01 00:00:00