Integrated peptide and glycan biomarker discovery using MALDI-TOF mass spectrometry

Rency S. Varghese; Lenka Goldman; Yanming An; Christopher A. Loffredo; Mohamed Abdel-Hamid; Zuzana Kyselova; Yehia Mechref; Milos Novotny; Steve K. Drake; Radoslav Goldman; Habtom W. Ressom

doi:10.1109/iembs.2008.4650034

Integrated peptide and glycan biomarker discovery using MALDI-TOF mass spectrometry

Rency S. Varghese, Lenka Goldman, Yanming An, Christopher A. Loffredo, Mohamed Abdel-Hamid, Zuzana Kyselova, Yehia Mechref, Milos Novotny, Steve K. Drake, Radoslav Goldman, Habtom W. Ressom

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

2 Scopus citations

Abstract

Quantitative comparison of peptides and glycans in serum is conducted using matrix-assisted laser desorption/ionization-time of flight mass spectrometry (MALDI-TOF MS) to identify biomarkers. A peak selection algorithm is developed to identify a panel of integrated peptide and glycan peaks to distinguish hepatocellular carcinoma (HCC) cases from high-risk population of patients with chronic liver disease (CLD). Candidate peptide and glycan markers selected frequently in multiple runs of the algorithm are presented. The performance of these markers is evaluated in terms of their ability to distinguish HCC cases from patients with CLD in a blinded validation set.

Original language	English
Title of host publication	Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08
Publisher	IEEE Computer Society
Pages	3791-3794
Number of pages	4
ISBN (Print)	9781424418152
DOIs	https://doi.org/10.1109/iembs.2008.4650034
State	Published - 2008
Event	30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08 - Vancouver, BC, Canada Duration: Aug 20 2008 → Aug 25 2008

Publication series

Name	Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08 - "Personalized Healthcare through Technology"

Conference

Conference	30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08
Country/Territory	Canada
City	Vancouver, BC
Period	08/20/08 → 08/25/08

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10.1109/iembs.2008.4650034

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Varghese, R. S., Goldman, L., An, Y., Loffredo, C. A., Abdel-Hamid, M., Kyselova, Z., Mechref, Y., Novotny, M., Drake, S. K., Goldman, R., & Ressom, H. W. (2008). Integrated peptide and glycan biomarker discovery using MALDI-TOF mass spectrometry. In Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08 (pp. 3791-3794). [4650034] (Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08 - "Personalized Healthcare through Technology"). IEEE Computer Society. https://doi.org/10.1109/iembs.2008.4650034

Varghese, Rency S. ; Goldman, Lenka ; An, Yanming et al. / Integrated peptide and glycan biomarker discovery using MALDI-TOF mass spectrometry. Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08. IEEE Computer Society, 2008. pp. 3791-3794 (Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08 - "Personalized Healthcare through Technology").

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title = "Integrated peptide and glycan biomarker discovery using MALDI-TOF mass spectrometry",

abstract = "Quantitative comparison of peptides and glycans in serum is conducted using matrix-assisted laser desorption/ionization-time of flight mass spectrometry (MALDI-TOF MS) to identify biomarkers. A peak selection algorithm is developed to identify a panel of integrated peptide and glycan peaks to distinguish hepatocellular carcinoma (HCC) cases from high-risk population of patients with chronic liver disease (CLD). Candidate peptide and glycan markers selected frequently in multiple runs of the algorithm are presented. The performance of these markers is evaluated in terms of their ability to distinguish HCC cases from patients with CLD in a blinded validation set.",

author = "Varghese, {Rency S.} and Lenka Goldman and Yanming An and Loffredo, {Christopher A.} and Mohamed Abdel-Hamid and Zuzana Kyselova and Yehia Mechref and Milos Novotny and Drake, {Steve K.} and Radoslav Goldman and Ressom, {Habtom W.}",

year = "2008",

doi = "10.1109/iembs.2008.4650034",

language = "English",

isbn = "9781424418152",

series = "Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08 - {"}Personalized Healthcare through Technology{"}",

publisher = "IEEE Computer Society",

pages = "3791--3794",

booktitle = "Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08",

note = "30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08 ; Conference date: 20-08-2008 Through 25-08-2008",

}

Varghese, RS, Goldman, L, An, Y, Loffredo, CA, Abdel-Hamid, M, Kyselova, Z, Mechref, Y, Novotny, M, Drake, SK, Goldman, R & Ressom, HW 2008, Integrated peptide and glycan biomarker discovery using MALDI-TOF mass spectrometry. in Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08., 4650034, Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08 - "Personalized Healthcare through Technology", IEEE Computer Society, pp. 3791-3794, 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08, Vancouver, BC, Canada, 08/20/08. https://doi.org/10.1109/iembs.2008.4650034

Integrated peptide and glycan biomarker discovery using MALDI-TOF mass spectrometry. / Varghese, Rency S.; Goldman, Lenka; An, Yanming et al.
Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08. IEEE Computer Society, 2008. p. 3791-3794 4650034 (Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08 - "Personalized Healthcare through Technology").

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

TY - GEN

T1 - Integrated peptide and glycan biomarker discovery using MALDI-TOF mass spectrometry

AU - Varghese, Rency S.

AU - Goldman, Lenka

AU - An, Yanming

AU - Loffredo, Christopher A.

AU - Abdel-Hamid, Mohamed

AU - Kyselova, Zuzana

AU - Mechref, Yehia

AU - Novotny, Milos

AU - Drake, Steve K.

AU - Goldman, Radoslav

AU - Ressom, Habtom W.

PY - 2008

Y1 - 2008

N2 - Quantitative comparison of peptides and glycans in serum is conducted using matrix-assisted laser desorption/ionization-time of flight mass spectrometry (MALDI-TOF MS) to identify biomarkers. A peak selection algorithm is developed to identify a panel of integrated peptide and glycan peaks to distinguish hepatocellular carcinoma (HCC) cases from high-risk population of patients with chronic liver disease (CLD). Candidate peptide and glycan markers selected frequently in multiple runs of the algorithm are presented. The performance of these markers is evaluated in terms of their ability to distinguish HCC cases from patients with CLD in a blinded validation set.

AB - Quantitative comparison of peptides and glycans in serum is conducted using matrix-assisted laser desorption/ionization-time of flight mass spectrometry (MALDI-TOF MS) to identify biomarkers. A peak selection algorithm is developed to identify a panel of integrated peptide and glycan peaks to distinguish hepatocellular carcinoma (HCC) cases from high-risk population of patients with chronic liver disease (CLD). Candidate peptide and glycan markers selected frequently in multiple runs of the algorithm are presented. The performance of these markers is evaluated in terms of their ability to distinguish HCC cases from patients with CLD in a blinded validation set.

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U2 - 10.1109/iembs.2008.4650034

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C2 - 19163537

AN - SCOPUS:61849122939

SN - 9781424418152

T3 - Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08 - "Personalized Healthcare through Technology"

SP - 3791

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BT - Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08

PB - IEEE Computer Society

T2 - 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08

Y2 - 20 August 2008 through 25 August 2008

ER -

Varghese RS, Goldman L, An Y, Loffredo CA, Abdel-Hamid M, Kyselova Z et al. Integrated peptide and glycan biomarker discovery using MALDI-TOF mass spectrometry. In Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08. IEEE Computer Society. 2008. p. 3791-3794. 4650034. (Proceedings of the 30th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS'08 - "Personalized Healthcare through Technology"). doi: 10.1109/iembs.2008.4650034

Integrated peptide and glycan biomarker discovery using MALDI-TOF mass spectrometry

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