NDLI: Comparative Membranome Expression Analysis in Primary Tumors and Derived Cell Lines

Content Provider	PubMed Central
Author	Uva, Paolo Lahm, Armin Andrea, Sbardellati Grigoriadis, Anita Tutt, Andrew Rinaldis, Emanuele De
Editor	Hoheisel, Jörg
Abstract	Despite the wide use of cell lines in cancer research, the extent to which their surface properties correspond to those of primary tumors is poorly characterized. The present study addresses this problem from a transcriptional standpoint, analyzing the expression of membrane protein genes - the Membranome – in primary tumors and immortalized in-vitro cultured tumor cells. 409 human samples, deriving from ten independent studies, were analyzed. These comprise normal tissues, primary tumors and tumor derived cell lines deriving from eight different tissues: brain, breast, colon, kidney, leukemia, lung, melanoma, and ovary. We demonstrated that the Membranome has greater power than the remainder of the transcriptome when used as input for the automatic classification of tumor samples. This feature is maintained in tumor derived cell lines. In most cases primary tumors show maximal similarity in Membranome expression with cell lines of same tissue origin. Differences in Membranome expression between tumors and cell lines were analyzed also at the pathway level and biological themes were identified that were differentially regulated in the two settings. Moreover, by including normal samples in the analysis, we quantified the degree to which cell lines retain the Membranome up- and down- regulations observed in primary tumors with respect to their normal counterparts. We showed that most of the Membranome up-regulations observed in primary tumors are lost in the in-vitro cultured cells. Conversely, the majority of Membranome genes down-regulated upon tumor transformation maintain lower expression levels also in the cell lines. This study points towards a central role of Membranome genes in the definition of the tumor phenotype. The comparative analysis of primary tumors and cell lines identifies the limits of cell lines as a model for the study of cancer-related processes mediated by the cell surface. Results presented allow for a more rational use of the cell lines as a model of cancer.
Related Links	http://dx.doi.org/10.1371/journal.pone.0011742
Starting Page	11742
File Format	PDF
ISSN	19326203
e-ISSN	19326203
Journal	PLoS ONE
Issue Number	7
Volume Number	5
Language	English
Publisher	Public Library of Science
Publisher Date	2010-07-23
Access Restriction	Open
Rights Holder	Public Library of Science
Subject Keyword	Research in Higher Education
Content Type	Text
Resource Type	Article
Subject	Multidisciplinary

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
5	Website/Portal (Helpdesk)	Queries regarding NDLI and its services	support@ndl.gov.in
6	Contents and Copyright Issues	Queries related to content curation and copyright issues	content@ndl.gov.in
7	National Digital Library of India Club (NDLI Club)	Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach	clubsupport@ndl.gov.in
8	Digital Preservation Centre (DPC)	Assistance with digitizing and archiving copyright-free printed books	dpc@ndl.gov.in
9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in

Comparative Membranome Expression Analysis in Primary Tumors and Derived Cell Lines

Comparative analysis and integrative classification of NCI60 cell lines and primary tumors using gene expression profiling data

Expression of differentiation and murine leukemia virus antigens on cells of primary tumors and cell lines derived from chemically induced lymphomas of RF/J mice.

Genomic and phenotypic profiles of two Brazilian breast cancer cell lines derived from primary human tumors

Integrated classification of lung tumors and cell lines by expression profiling

Polarized intestinal hybrid cell lines derived from primary culture: establishment and characterization.

Genome-wide gene copy number and expression analysis of primary gastric tumors and gastric cancer cell lines

Analysis of the growth properties and physical state of the human papillomavirus type 16 genome in cell lines derived from primary cervical tumors.

MUC1 expression in human prostate cancer cell lines and primary tumors

Comparative Membranome Expression Analysis in Primary Tumors and Derived Cell Lines

Similar Documents

Comparative Membranome Expression Analysis in Primary Tumors and Derived Cell Lines

Comparative analysis and integrative classification of NCI60 cell lines and primary tumors using gene expression profiling data

Expression of differentiation and murine leukemia virus antigens on cells of primary tumors and cell lines derived from chemically induced lymphomas of RF/J mice.

Genomic and phenotypic profiles of two Brazilian breast cancer cell lines derived from primary human tumors

Integrated classification of lung tumors and cell lines by expression profiling

Polarized intestinal hybrid cell lines derived from primary culture: establishment and characterization.

Genome-wide gene copy number and expression analysis of primary gastric tumors and gastric cancer cell lines

Analysis of the growth properties and physical state of the human papillomavirus type 16 genome in cell lines derived from primary cervical tumors.

MUC1 expression in human prostate cancer cell lines and primary tumors

Comparative Membranome Expression Analysis in Primary Tumors and Derived Cell Lines