Transcript and gene analyses by gel electrophoresis on microchips

Lotta Amundsen, Nadia Del Bueno, Jari Rautio, Mikko Pakanen, Kristiina Iljin, Matthias Nees, Kirsi Ketola, Leena Hakalahti, Ralph Liebert, Sanna Uusitalo, Marika Kurkinen, Ari Hokkanen, Ingmar Stuns, Richard A. Mathies, Tarja Nevanen, Hans Söderlund, Harri Siitari

Research output: Contribution to conferenceConference articleScientific

Abstract

VTT QB3 project aims at implementing analytical tools based on molecular recognition in new low cost diagnostic platforms. The scientific research within the project is performed in University of California Berkeley (UCB) and at VTT. This presentation compiles the project results obtained from transcript and gene analyses on microfluidic platforms. In UCB, the studies focus on quantification of selected transcripts of prostate cancer cells on microfluidic borosilicate chips. Prostate cancer has various types that differ in the way the genes are expressed in the carcinoma cells. A gene expression fingerprint revealing the cancer type would be very valuable for prognosis and treatment decisions. Here, the TRAC (transcript analysis with the aid of affinity capture) method is used for transcript analysis. TRAC is based on quantifying selected mRNA molecules with differently sized target-specific oligonucleotide probes. After sample pre-treatment, the probes are separated in an electric field and identified with a laser-induced fluorescence detector. In this project, gene expression in different prostate cancer cell lines is determined by quantifying the target-specific fluorescent probes on a microchip combining in-line affinity capture and gel electrophoresis. At VTT, the QB3 focus is on developing and producing low cost polymer chips for bioanalytical and diagnostic purposes. At VTT, a roll-to-roll (R2R) hot-embossing manufacture process has been developed for microfluidic platforms. R2R fabricated poly(methyl metacrylate) (PMMA) chips, designed for electrophoretic separation of oligonucleotides, are currently being tested for selected gene analysis.
Original languageEnglish
Pages18-19
Publication statusPublished - 2010
MoE publication typeNot Eligible
Event1st International Scientific Conference on Microfluidics in Bioanalytical Research and Diagnosis - Espoo, Finland
Duration: 30 Sep 20101 Oct 2010

Conference

Conference1st International Scientific Conference on Microfluidics in Bioanalytical Research and Diagnosis
CountryFinland
CityEspoo
Period30/09/101/10/10

Fingerprint

Electrophoresis
Microfluidics
Genes
Gels
Cells
Gene expression
Molecular recognition
Oligonucleotide Probes
Fluorescent Dyes
Oligonucleotides
Costs
Polymers
Fluorescence
Electric fields
Detectors
Messenger RNA
Molecules
Lasers

Keywords

  • Lab on a chip
  • microfluidics
  • microchip
  • transcript analysis
  • messanger RNA
  • electrophoresis
  • prostate cancere
  • roll-to-roll hot embossing

Cite this

Amundsen, L., Del Bueno, N., Rautio, J., Pakanen, M., Iljin, K., Nees, M., ... Siitari, H. (2010). Transcript and gene analyses by gel electrophoresis on microchips. 18-19. Paper presented at 1st International Scientific Conference on Microfluidics in Bioanalytical Research and Diagnosis, Espoo, Finland.
Amundsen, Lotta ; Del Bueno, Nadia ; Rautio, Jari ; Pakanen, Mikko ; Iljin, Kristiina ; Nees, Matthias ; Ketola, Kirsi ; Hakalahti, Leena ; Liebert, Ralph ; Uusitalo, Sanna ; Kurkinen, Marika ; Hokkanen, Ari ; Stuns, Ingmar ; Mathies, Richard A. ; Nevanen, Tarja ; Söderlund, Hans ; Siitari, Harri. / Transcript and gene analyses by gel electrophoresis on microchips. Paper presented at 1st International Scientific Conference on Microfluidics in Bioanalytical Research and Diagnosis, Espoo, Finland.
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title = "Transcript and gene analyses by gel electrophoresis on microchips",
abstract = "VTT QB3 project aims at implementing analytical tools based on molecular recognition in new low cost diagnostic platforms. The scientific research within the project is performed in University of California Berkeley (UCB) and at VTT. This presentation compiles the project results obtained from transcript and gene analyses on microfluidic platforms. In UCB, the studies focus on quantification of selected transcripts of prostate cancer cells on microfluidic borosilicate chips. Prostate cancer has various types that differ in the way the genes are expressed in the carcinoma cells. A gene expression fingerprint revealing the cancer type would be very valuable for prognosis and treatment decisions. Here, the TRAC (transcript analysis with the aid of affinity capture) method is used for transcript analysis. TRAC is based on quantifying selected mRNA molecules with differently sized target-specific oligonucleotide probes. After sample pre-treatment, the probes are separated in an electric field and identified with a laser-induced fluorescence detector. In this project, gene expression in different prostate cancer cell lines is determined by quantifying the target-specific fluorescent probes on a microchip combining in-line affinity capture and gel electrophoresis. At VTT, the QB3 focus is on developing and producing low cost polymer chips for bioanalytical and diagnostic purposes. At VTT, a roll-to-roll (R2R) hot-embossing manufacture process has been developed for microfluidic platforms. R2R fabricated poly(methyl metacrylate) (PMMA) chips, designed for electrophoretic separation of oligonucleotides, are currently being tested for selected gene analysis.",
keywords = "Lab on a chip, microfluidics, microchip, transcript analysis, messanger RNA, electrophoresis, prostate cancere, roll-to-roll hot embossing",
author = "Lotta Amundsen and {Del Bueno}, Nadia and Jari Rautio and Mikko Pakanen and Kristiina Iljin and Matthias Nees and Kirsi Ketola and Leena Hakalahti and Ralph Liebert and Sanna Uusitalo and Marika Kurkinen and Ari Hokkanen and Ingmar Stuns and Mathies, {Richard A.} and Tarja Nevanen and Hans S{\"o}derlund and Harri Siitari",
note = "HUO: Projektin nimi VTT Qb3 Project code: 23198; 1st International Scientific Conference on Microfluidics in Bioanalytical Research and Diagnosis ; Conference date: 30-09-2010 Through 01-10-2010",
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language = "English",
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}

Amundsen, L, Del Bueno, N, Rautio, J, Pakanen, M, Iljin, K, Nees, M, Ketola, K, Hakalahti, L, Liebert, R, Uusitalo, S, Kurkinen, M, Hokkanen, A, Stuns, I, Mathies, RA, Nevanen, T, Söderlund, H & Siitari, H 2010, 'Transcript and gene analyses by gel electrophoresis on microchips' Paper presented at 1st International Scientific Conference on Microfluidics in Bioanalytical Research and Diagnosis, Espoo, Finland, 30/09/10 - 1/10/10, pp. 18-19.

Transcript and gene analyses by gel electrophoresis on microchips. / Amundsen, Lotta; Del Bueno, Nadia; Rautio, Jari; Pakanen, Mikko; Iljin, Kristiina; Nees, Matthias; Ketola, Kirsi; Hakalahti, Leena; Liebert, Ralph; Uusitalo, Sanna; Kurkinen, Marika; Hokkanen, Ari; Stuns, Ingmar; Mathies, Richard A.; Nevanen, Tarja; Söderlund, Hans; Siitari, Harri.

2010. 18-19 Paper presented at 1st International Scientific Conference on Microfluidics in Bioanalytical Research and Diagnosis, Espoo, Finland.

Research output: Contribution to conferenceConference articleScientific

TY - CONF

T1 - Transcript and gene analyses by gel electrophoresis on microchips

AU - Amundsen, Lotta

AU - Del Bueno, Nadia

AU - Rautio, Jari

AU - Pakanen, Mikko

AU - Iljin, Kristiina

AU - Nees, Matthias

AU - Ketola, Kirsi

AU - Hakalahti, Leena

AU - Liebert, Ralph

AU - Uusitalo, Sanna

AU - Kurkinen, Marika

AU - Hokkanen, Ari

AU - Stuns, Ingmar

AU - Mathies, Richard A.

AU - Nevanen, Tarja

AU - Söderlund, Hans

AU - Siitari, Harri

N1 - HUO: Projektin nimi VTT Qb3 Project code: 23198

PY - 2010

Y1 - 2010

N2 - VTT QB3 project aims at implementing analytical tools based on molecular recognition in new low cost diagnostic platforms. The scientific research within the project is performed in University of California Berkeley (UCB) and at VTT. This presentation compiles the project results obtained from transcript and gene analyses on microfluidic platforms. In UCB, the studies focus on quantification of selected transcripts of prostate cancer cells on microfluidic borosilicate chips. Prostate cancer has various types that differ in the way the genes are expressed in the carcinoma cells. A gene expression fingerprint revealing the cancer type would be very valuable for prognosis and treatment decisions. Here, the TRAC (transcript analysis with the aid of affinity capture) method is used for transcript analysis. TRAC is based on quantifying selected mRNA molecules with differently sized target-specific oligonucleotide probes. After sample pre-treatment, the probes are separated in an electric field and identified with a laser-induced fluorescence detector. In this project, gene expression in different prostate cancer cell lines is determined by quantifying the target-specific fluorescent probes on a microchip combining in-line affinity capture and gel electrophoresis. At VTT, the QB3 focus is on developing and producing low cost polymer chips for bioanalytical and diagnostic purposes. At VTT, a roll-to-roll (R2R) hot-embossing manufacture process has been developed for microfluidic platforms. R2R fabricated poly(methyl metacrylate) (PMMA) chips, designed for electrophoretic separation of oligonucleotides, are currently being tested for selected gene analysis.

AB - VTT QB3 project aims at implementing analytical tools based on molecular recognition in new low cost diagnostic platforms. The scientific research within the project is performed in University of California Berkeley (UCB) and at VTT. This presentation compiles the project results obtained from transcript and gene analyses on microfluidic platforms. In UCB, the studies focus on quantification of selected transcripts of prostate cancer cells on microfluidic borosilicate chips. Prostate cancer has various types that differ in the way the genes are expressed in the carcinoma cells. A gene expression fingerprint revealing the cancer type would be very valuable for prognosis and treatment decisions. Here, the TRAC (transcript analysis with the aid of affinity capture) method is used for transcript analysis. TRAC is based on quantifying selected mRNA molecules with differently sized target-specific oligonucleotide probes. After sample pre-treatment, the probes are separated in an electric field and identified with a laser-induced fluorescence detector. In this project, gene expression in different prostate cancer cell lines is determined by quantifying the target-specific fluorescent probes on a microchip combining in-line affinity capture and gel electrophoresis. At VTT, the QB3 focus is on developing and producing low cost polymer chips for bioanalytical and diagnostic purposes. At VTT, a roll-to-roll (R2R) hot-embossing manufacture process has been developed for microfluidic platforms. R2R fabricated poly(methyl metacrylate) (PMMA) chips, designed for electrophoretic separation of oligonucleotides, are currently being tested for selected gene analysis.

KW - Lab on a chip

KW - microfluidics

KW - microchip

KW - transcript analysis

KW - messanger RNA

KW - electrophoresis

KW - prostate cancere

KW - roll-to-roll hot embossing

M3 - Conference article

SP - 18

EP - 19

ER -

Amundsen L, Del Bueno N, Rautio J, Pakanen M, Iljin K, Nees M et al. Transcript and gene analyses by gel electrophoresis on microchips. 2010. Paper presented at 1st International Scientific Conference on Microfluidics in Bioanalytical Research and Diagnosis, Espoo, Finland.