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Systems biology, post-genomic analysis and emerging technologies Section edited by Carlos Caldas

This section will consider studies on all aspects of the function of biological systems at the molecular and cellular level, in particular those addressing network modeling, quantitative analyses and the integration of different levels of information. Topics of interest include, but are not limited to, deep sequencing-based technologies, computational biology and machine learning in relation to cancer biology.

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1.

Research article   Open Access Highly Accessed

Metabolic system alterations in pancreatic cancer patient serum: potential for early detection

Shawn A Ritchie, Hirofumi Akita, Ichiro Takemasa, Hidetoshi Eguchi, Elodie Pastural, Hiroaki Nagano, Morito Monden, Yuichiro Doki, Masaki Mori, Wei Jin, Tolulope T Sajobi, Dushmanthi Jayasinghe, Bassirou Chitou, Yasuyo Yamazaki, Thayer White, Dayan B Goodenowe BMC Cancer 2013, 13:416 (12 September 2013)

Abstract | Full text | PDF | ePUB | PubMed

2.

Technical advance   Open Access

Analytic performance studies and clinical reproducibility of a real-time PCR assay for the detection of epidermal growth factor receptor gene mutations in formalin-fixed paraffin-embedded tissue specimens of non-small cell lung cancer

Patrick O’Donnell, Jane Ferguson, Johnny Shyu, Robert Current, Taraneh Rehage, Julie Tsai, Mari Christensen, Ha Tran, Sean Shih-Chang Chien, Felice Shieh, Wen Wei, H Lawrence, Lin Wu, Robert Schilling, Kenneth Bloom, Warren Maltzman, Steven Anderson, Stephen Soviero BMC Cancer 2013, 13:210 (27 April 2013)

Abstract | Full text | PDF | ePUB | PubMed

3.

Research article   Open Access

Exome profiling of primary, metastatic and recurrent ovarian carcinomas in a BRCA1-positive patient

Jian Zhang, Yuhao Shi, Emilie Lalonde, Lili Li, Luca Cavallone, Alex Ferenczy, Walter H Gotlieb, William D Foulkes, Jacek Majewski BMC Cancer 2013, 13:146 (22 March 2013)

Abstract | Full text | PDF | ePUB | PubMed |  Editor’s summary

Whole-exome sequencing of primary, metastatic and recurrent ovarian carcinoma from a single BRCA1-positive patient is a powerful method to detect subsequent somatic mutations and can provide information about the molecular evolution of BRCA1-driven ovarian cancer.

4.

Research article   Open Access

Transposon activation mutagenesis as a screening tool for identifying resistance to cancer therapeutics

Li Chen, Lynda Stuart, Toshiro K Ohsumi, Shawn Burgess, Gaurav K Varshney, Anahita Dastur, Mark Borowsky, Cyril Benes, Adam Lacy-Hulbert, Emmett V Schmidt BMC Cancer 2013, 13:93 (27 February 2013)

Abstract | Full text | PDF | PubMed

5.

Research article   Open Access

The significance and robustness of a plasma free amino acid (PFAA) profile-based multiplex function for detecting lung cancer

Masato Shingyoji, Toshihiko Iizasa, Masahiko Higashiyama, Fumio Imamura, Nobuhiro Saruki, Akira Imaizumi, Hiroshi Yamamoto, Takashi Daimon, Osamu Tochikubo, Toru Mitsushima, Minoru Yamakado, Hideki Kimura BMC Cancer 2013, 13:77 (15 February 2013)

Abstract | Full text | PDF | PubMed

6.

Research article   Open Access

Does phosphorylation of cofilin affect the progression of human bladder cancer?

Hong Chung, Bokyung Kim, Seung-Hyo Jung, Kyung-Jong Won, Xiaowen Jiang, Chang-Kwon Lee, So Lim, Sang-Kuk Yang, Ki Song, Hong Kim BMC Cancer 2013, 13:45 (1 February 2013)

Abstract | Full text | PDF | PubMed

7.

Research article   Open Access

Suppression subtractive hybridization identified differentially expressed genes in lung adenocarcinoma: ERGIC3 as a novel lung cancer-related gene

Mingsong Wu, Tao Tu, Yunchao Huang, Yi Cao BMC Cancer 2013, 13:44 (1 February 2013)

Abstract | Full text | PDF | PubMed

8.

Research article   Open Access

Molecular pathways undergoing dramatic transcriptomic changes during tumor development in the human colon

Rosalia Maglietta, Vania Liuzzi, Elisa Cattaneo, Endre Laczko, Ada Piepoli, Anna Panza, Massimo Carella, Orazio Palumbo, Teresa Staiano, Federico Buffoli, Angelo Andriulli, Giancarlo Marra, Nicola Ancona BMC Cancer 2012, 12:608 (19 December 2012)

Abstract | Full text | PDF | PubMed

9.

Research article   Open Access

Expression of aurora kinase A is associated with metastasis-free survival in node-negative breast cancer patients

Wulf Siggelkow, Daniel Boehm, Susanne Gebhard, Marco Battista, Isabel Sicking, Antje Lebrecht, Christine Solbach, Birte Hellwig, Jörg Rahnenführer, Heinz Koelbl, Mathias Gehrmann, Rosemarie Marchan, Cristina Cadenas, Jan G Hengstler, Marcus Schmidt BMC Cancer 2012, 12:562 (27 November 2012)

Abstract | Full text | PDF | PubMed

10.

Research article   Open Access

Increased frequency of single base substitutions in a population of transcripts expressed in cancer cells

Laurent Bianchetti, David Kieffer, Rémi Féderkeil, Olivier Poch BMC Cancer 2012, 12:509 (8 November 2012)

Abstract | Full text | PDF | PubMed

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