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1.
12751 Accesses
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Iron behaving badly: inappropriate iron chelation as a major contributor to the aetiology of vascular and other progressive inflammatory and degenerative diseases
Douglas B Kell BMC Medical Genomics 2009, 2:2 (8 January 2009)
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Editor’s summary
Douglas Kell reviews the role of iron-catalysed free radicals in disease, which underpin the behavior of many physiological and pathological processes, and considers the need for better understanding using an integrative, systems-level approach.
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2.
5276 Accesses
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PAM50 Breast Cancer Subtyping by RT-qPCR and Concordance with Standard Clinical Molecular Markers
Roy RL Bastien, Álvaro Rodríguez-Lescure, Mark TW Ebbert, Aleix Prat, Blanca Munárriz, Leslie Rowe, Patricia Miller, Manuel Ruiz-Borrego, Daniel Anderson, Bradley Lyons, Isabel Álvarez, Tracy Dowell, David Wall, Miguel Seguí, Lee Barley, Kenneth M Boucher, Emilio Alba, Lisa Pappas, Carole A Davis, Ignacio Aranda, Christiane Fauron, Inge J Stijleman, José Palacios, Antonio Antón, Eva Carrasco, Rosalía Caballero, Matthew J Ellis, Torsten O Nielsen, Charles M Perou, Mark Astill, Philip S Bernard, Miguel Martín et al.
BMC Medical Genomics 2012, 5:44 (4 October 2012)
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3.
4812 Accesses
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Global analysis of DNA methylation in early-stage liver fibrosis
Yoko Komatsu, Tsuyoshi Waku, Naoya Iwasaki, Wakana Ono, Chie Yamaguchi, Junn Yanagisawa BMC Medical Genomics 2012, 5:5 (27 January 2012)
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4.
4676 Accesses
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Noninvasive Fetal Trisomy (NIFTY) test: an advanced noninvasive prenatal diagnosis methodology for fetal autosomal and sex chromosomal aneuploidies
Fuman Jiang, Jinghui Ren, Fang Chen, Yuqiu Zhou, Jiansheng Xie, Shan Dan, Yue Su, Jianhong Xie, Baomin Yin, Wen Su, Huakun Zhang, Wei Wang, Xianghua Chai, Linhua Lin, Hui Guo, Qiyun Li, Peipei Li, Yuying Yuan, Xiaoyu Pan, Yihan Li, Lifu Liu, Huifei Chen, Zhaoling Xuan, Shengpei Chen, Chunlei Zhang, Hongyun Zhang, Zhongming Tian, Zhengyu Zhang, Hui Jiang, Lijian Zhao, Weimou Zheng, Songgang Li, Yingrui Li, Jun Wang, Jian Wang, Xiuqing Zhang et al.
BMC Medical Genomics 2012, 5:57 (1 December 2012)
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5.
4038 Accesses
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Targeted high throughput sequencing in clinical cancer Settings: formaldehyde fixed-paraffin embedded (FFPE) tumor tissues, input amount and tumor heterogeneity
Martin Kerick, Melanie Isau, Bernd Timmermann, Holger Sültmann, Ralf Herwig, Sylvia Krobitsch, Georg Schaefer, Irmgard Verdorfer, Georg Bartsch, Helmut Klocker, Hans Lehrach, Michal R Schweiger BMC Medical Genomics 2011, 4:68 (29 September 2011)
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6.
3644 Accesses
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A systematic comparison and evaluation of high density exon arrays and RNA-seq technology used to unravel the peripheral blood transcriptome of sickle cell disease
Nalini Raghavachari, Jennifer Barb, Yanqin Yang, Poching Liu, Kimberly Woodhouse, Daniel Levy, Christopher J O‘Donnell, Peter J Munson, Gregory J Kato BMC Medical Genomics 2012, 5:28 (29 June 2012)
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| F1000 Biology
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7.
3553 Accesses
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A target based approach identifies genomic predictors of breast cancer patient response to chemotherapy
Robin M Hallett, Gregory Pond, John A Hassell BMC Medical Genomics 2012, 5:16 (11 May 2012)
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Two new gene expression signatures can predict how breast cancer tumors will respond to two of the common kinds of chemotherapy, highlighting the potential of target-based gene expression indices to predict patient response to drug therapy.
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8.
3437 Accesses
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The effects of MicroRNA transfections on global patterns of gene expression in ovarian cancer cells are functionally coordinated
Shubin W Shahab, Lilya V Matyunina, Christopher G Hill, Lijuan Wang, Roman Mezencev, L Walker, John F McDonald BMC Medical Genomics 2012, 5:33 (1 August 2012)
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9.
3399 Accesses
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A gene expression signature of RAS pathway dependence predicts response to PI3K and RAS pathway inhibitors and expands the population of RAS pathway activated tumors
Andrey Loboda, Michael Nebozhyn, Rich Klinghoffer, Jason Frazier, Michael Chastain, William Arthur, Brian Roberts, Theresa Zhang, Melissa Chenard, Brian Haines, Jannik Andersen, Kumiko Nagashima, Cloud Paweletz, Bethany Lynch, Igor Feldman, Hongyue Dai, Pearl Huang, James Watters BMC Medical Genomics 2010, 3:26 (30 June 2010)
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10.
3318 Accesses
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DNA methylation differences at growth related genes correlate with birth weight: a molecular signature linked to developmental origins of adult disease?
Nahid Turan, Mohamed F Ghalwash, Sunita Katari, Christos Coutifaris, Zoran Obradovic, Carmen Sapienza BMC Medical Genomics 2012, 5:10 (12 April 2012)
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Editor’s summary
Profiling of inter-individual DNA methylation differences in neonates has identified 23 genes that account for 70-87% of variance in birth weight, whilst traditional gene expression profiling identified a far smaller proportion.
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11.
3148 Accesses
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Batch effect correction for genome-wide methylation data with Illumina Infinium platform
Zhifu Sun, High Chai, Yanhong Wu, Wendy M White, Krishna V Donkena, Christopher J Klein, Vesna D Garovic, Terry M Therneau, Jean-Pierre A Kocher BMC Medical Genomics 2011, 4:84 (16 December 2011)
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12.
2988 Accesses
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Molecular analysis of endothelial progenitor cell (EPC) subtypes reveals two distinct cell populations with different identities
Reinhold J Medina, Christina L O'Neill, Mark Sweeney, Jasenka Guduric-Fuchs, Tom A Gardiner, David A Simpson, Alan W Stitt BMC Medical Genomics 2010, 3:18 (13 May 2010)
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| F1000
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13.
2945 Accesses
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MicroRNA profiling of diverse endothelial cell types
Matthew N McCall, Oliver A Kent, Jianshi Yu, Karen Fox-Talbot, Ari L Zaiman, Marc K Halushka BMC Medical Genomics 2011, 4:78 (2 November 2011)
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14.
2842 Accesses
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An in silico analysis of dynamic changes in microRNA expression profiles in stepwise development of nasopharyngeal carcinoma
Zhaohui Luo, Liyang Zhang, Zheng Li, Xiayu Li, Gang Li, Haibo Yu, Chen Jiang, Yafei Dai, Xiaofang Guo, Juanjuan Xiang, Guiyuan Li BMC Medical Genomics 2012, 5:3 (19 January 2012)
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15.
2675 Accesses
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The eMERGE Network: A consortium of biorepositories linked to electronic medical records data for conducting genomic studies
Catherine A McCarty, Rex L Chisholm, Christopher G Chute, Iftikhar J Kullo, Gail P Jarvik, Eric B Larson, Rongling Li, Daniel R Masys, Marylyn D Ritchie, Dan M Roden, Jeffery P Struewing, Wendy A Wolf, the eMERGE Team BMC Medical Genomics 2011, 4:13 (26 January 2011)
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16.
2661 Accesses
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Genome-wide DNA methylation analysis for diabetic nephropathy in type 1 diabetes mellitus
Christopher G Bell, Andrew E Teschendorff, Vardhman K Rakyan, Alexander P Maxwell, Stephan Beck, David A Savage BMC Medical Genomics 2010, 3:33 (5 August 2010)
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17.
2657 Accesses
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Impact of RNA degradation on gene expression profiling
Lennart Opitz, Gabriela Salinas-Riester, Marian Grade, Klaus Jung, Peter Jo, Georg Emons, B Michael Ghadimi, Tim Beißbarth, Jochen Gaedcke BMC Medical Genomics 2010, 3:36 (9 August 2010)
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18.
2622 Accesses
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Saliva samples are a viable alternative to blood samples as a source of DNA for high throughput genotyping
Jean E Abraham, Mel J Maranian, Inmaculada Spiteri, Roslin Russell, Susan Ingle, Craig Luccarini, Helena M Earl, Paul PD Pharoah, Alison M Dunning, Carlos Caldas BMC Medical Genomics 2012, 5:19 (30 May 2012)
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19.
2538 Accesses
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Completion of the swine genome will simplify the production of swine as a large animal biomedical model
Eric M Walters, Eckhard Wolf, Jeffery J Whyte, Jiude Mao, Simone Renner, Hiroshi Nagashima, Eiji Kobayashi, Jianguo Zhao, Kevin D Wells, John K Critser, Lela K Riley, Randall S Prather BMC Medical Genomics 2012, 5:55 (15 November 2012)
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Editor’s summary
Eric M Walters and colleagues review the pig as a large animal biomedical model and how the publication of the swine genome sequence will further advance its utility for understanding human disease, transgenesis and xenotransplantation.
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20.
2361 Accesses
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MicroRNA expression signature in human abdominal aortic aneurysms
Matthew C Pahl, Kimberly Derr, Gabor Gäbel, Irene Hinterseher, James R Elmore, Charles M Schworer, Thomas C Peeler, David P Franklin, John L Gray, David J Carey, Gerard Tromp, Helena Kuivaniemi BMC Medical Genomics 2012, 5:25 (15 June 2012)
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21.
2351 Accesses
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Identification of genes with a correlation between copy number and expression in gastric cancer
Lei Cheng, Ping Wang, Sheng Yang, Yanqing Yang, Qing Zhang, Wen Zhang, Huasheng Xiao, Hengjun Gao, Qinghua Zhang BMC Medical Genomics 2012, 5:14 (4 May 2012)
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22.
2305 Accesses
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Cell cycle and aging, morphogenesis, and response to stimuli genes are individualized biomarkers of glioblastoma progression and survival
Nicola VL Serão, Kristin R Delfino, Bruce R Southey, Jonathan E Beever, Sandra L Rodriguez-Zas BMC Medical Genomics 2011, 4:49 (7 June 2011)
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23.
2293 Accesses
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Exploring the oral microbiota of children at various developmental stages of their dentition in the relation to their oral health
Wim Crielaard, Egija Zaura, Annemarie A Schuller, Susan M Huse, Roy C Montijn, Bart JF Keijser BMC Medical Genomics 2011, 4:22 (4 March 2011)
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24.
2288 Accesses
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Human breast cancer associated fibroblasts exhibit subtype specific gene expression profiles
Julia Tchou, Andrew V Kossenkov, Lisa Chang, Celine Satija, Meenhard Herlyn, Louise C Showe, Ellen Puré BMC Medical Genomics 2012, 5:39 (6 September 2012)
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25.
2281 Accesses
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Modeling microRNA-mRNA Interactions Using PLS Regression in Human Colon Cancer
Xiaohong Li, Ryan Gill, Nigel GF Cooper, Jae Yoo, Susmita Datta BMC Medical Genomics 2011, 4:44 (19 May 2011)
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26.
2277 Accesses
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The Roche Cancer Genome Database 2.0
Jan Küntzer, Daniela Maisel, Hans-Peter Lenhof, Stefan Klostermann, Helmut Burtscher BMC Medical Genomics 2011, 4:43 (17 May 2011)
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Editor’s summary
The enlarged Roche Cancer Genome Database integrates information from a number of human mutation databases and mutation data curated from the literature, with an improved interface and search functionality over the earlier version.
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27.
2217 Accesses
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MicroRNA profiling of a CD133+ spheroid-forming subpopulation of the OVCAR3 human ovarian cancer cell line
Eun Nam, Maria Lee, Ga Yim, Jae Kim, Sunghoon Kim, Sang Kim, Young Kim BMC Medical Genomics 2012, 5:18 (29 May 2012)
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28.
2195 Accesses
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Molecular diagnostics for congenital hearing loss including 15 deafness genes using a next generation sequencing platform
Sarah De Keulenaer, Jan Hellemans, Steve Lefever, Jean-Pierre Renard, Joachim De Schrijver, Hendrik Van de Voorde, Mohammad Tabatabaiefar, Filip Van Nieuwerburgh, Daisy Flamez, Filip Pattyn, Bieke Scharlaken, Dieter Deforce, Sofie Bekaert, Wim Van Criekinge, Jo Vandesompele, Guy Van Camp, Paul Coucke BMC Medical Genomics 2012, 5:17 (18 May 2012)
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29.
2124 Accesses
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Interaction of a traditional Chinese Medicine (PHY906) and CPT-11 on the inflammatory process in the tumor microenvironment
Ena Wang, Scott Bussom, Jinguo Chen, Courtney Quinn, Davide Bedognetti, Wing Lam, Fulan Guan, Zaoli Jiang, Yichao Mark, Yingdong Zhao, David F Stroncek, Jeffrey White, Francesco M Marincola, Yung-Chi Cheng BMC Medical Genomics 2011, 4:38 (11 May 2011)
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30.
2114 Accesses
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Prediction of HIV-1 virus-host protein interactions using virus and host sequence motifs
Perry Evans, William Dampier, Lyle Ungar, Aydin Tozeren BMC Medical Genomics 2009, 2:27 (18 May 2009)
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31.
2104 Accesses
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Discriminating lymphomas and reactive lymphadenopathy in lymph node biopsies by gene expression profiling
To Ha Loi, Anna Campain, Adam Bryant, Tim J Molloy, Mark Lutherborrow, Jennifer Turner, Yee Yang, David DF Ma BMC Medical Genomics 2011, 4:27 (31 March 2011)
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32.
2092 Accesses
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Defining the genomic signature of the parous breast
Suraj Peri, Ricardo de Cicco, Julia Santucci-Pereira, Michael Slifker, Eric A Ross, Irma H Russo, Patricia A Russo, Alan A Arslan, Ilana Belitskaya-Lévy, Anne Zeleniuch-Jacquotte, Pal Bordas, Per Lenner, Janet Åhman, Yelena Afanasyeva, Robert Johansson, Fathima Sheriff, Göran Hallmans, Paolo Toniolo, Jose Russo BMC Medical Genomics 2012, 5:46 (11 October 2012)
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Editor’s summary
Post-menopausal women who have previously given birth show differential gene expression in breast tissue compared to those who have not, with the affected pathways in RNA splicing and processing potentially contributing to their lowered breast cancer risk
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33.
2079 Accesses
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Peripheral blood gene expression patterns discriminate among chronic inflammatory diseases and healthy controls and identify novel targets
Bertalan Mesko, Szilard Poliska1, Andrea Szegedi, Zoltan Szekanecz, Karoly Palatka, Maria Papp, Laszlo Nagy BMC Medical Genomics 2010, 3:15 (5 May 2010)
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34.
2071 Accesses
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A genome-wide DNA methylation study in colorectal carcinoma
Muhammad G Kibriya, Maruf Raza, Farzana Jasmine, Shantanu Roy, Rachelle Paul-Brutus, Ronald Rahaman, Charlotte Dodsworth, Muhammad Rakibuz-Zaman, Mohammed Kamal, Habibul Ahsan BMC Medical Genomics 2011, 4:50 (23 June 2011)
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35.
2070 Accesses
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Structural, functional and molecular analysis of the effects of aging in the small intestine and colon of C57BL/6J mice
Wilma T Steegenga, Nicole JW de Wit, Mark V Boekschoten, Noortje IJssennagger, Carolien Lute, Shohreh Keshtkar, Mechteld M Bromhaar, Ellen Kampman, Lisette C de Groot, Michael Muller BMC Medical Genomics 2012, 5:38 (28 August 2012)
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Editor’s summary
The small intestine and colons of aging mice do not show marked changes in expression of genes involved in metabolic processes, however immune response and inflammation gene expression increases and aging-induced global hypomethylation is also present.
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36.
2020 Accesses
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The gene expression profiles of primary and metastatic melanoma yields a transition point of tumor progression and metastasis
Adam I Riker, Steven A Enkemann, Oystein Fodstad, Suhu Liu, Suping Ren, Christopher Morris, Yaguang Xi, Paul Howell, Brandon Metge, Rajeev S Samant, Lalita A Shevde, Wenbin Li, Steven Eschrich, Adil Daud, Jingfang Ju, Jaime Matta BMC Medical Genomics 2008, 1:13 (28 April 2008)
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37.
2015 Accesses
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Deep RNA sequencing analysis of readthrough gene fusions in human prostate adenocarcinoma and reference samples
Serban Nacu, Wenlin Yuan, Zhengyan Kan, Deepali Bhatt, Celina Rivers, Jeremy Stinson, Brock A Peters, Zora Modrusan, Kenneth Jung, Somasekar Seshagiri, Thomas D Wu BMC Medical Genomics 2011, 4:11 (24 January 2011)
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38.
1996 Accesses
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"Who owns your poop?": insights regarding the intersection of human microbiome research and the ELSI aspects of biobanking and related studies
Alice K Hawkins, Kieran C O'Doherty BMC Medical Genomics 2011, 4:72 (7 October 2011)
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39.
1993 Accesses
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2D-electrophoresis and multiplex immunoassay proteomic analysis of different body fluids and cellular components reveal known and novel markers for extended fasting
Freek G Bouwman, Baukje de Roos, Isabel Rubio-Aliaga, L Katie Crosley, Susan J Duthie, Claus Mayer, Graham Horgan, Abigael C Polley, Carolin Heim, Susan LM Coort, Chris T Evelo, Francis Mulholland, Ian T Johnson, Ruan M Elliott, Hannelore Daniel, Edwin CM Mariman BMC Medical Genomics 2011, 4:24 (25 March 2011)
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40.
1978 Accesses
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EMT is the dominant program in human colon cancer
Andre Loboda, Michael V Nebozhyn, James W Watters, Carolyne A Buser, Peter Shaw, Pearl S Huang, Laura Van't Veer, Rob AEM Tollenaar, David B Jackson, Deepak Agrawal, Hongyue Dai, Timothy J Yeatman BMC Medical Genomics 2011, 4:9 (20 January 2011)
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Editor’s summary
The intrinsic first principal component (PC1) signature, tightly correlated with epithelial-mesenchymal transition (EMT), is highly prognostic for colon cancer recurrence and may also aid in sub classifying multiple types of cancer and their novel therapeutics.
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41.
1970 Accesses
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Genotator: A disease-agnostic tool for genetic annotation of disease
Dennis P Wall, Rimma Pivovarov, Mark Tong, Jae-Yoon Jung, Vincent A Fusaro, Todd F DeLuca, Peter J Tonellato BMC Medical Genomics 2010, 3:50 (29 October 2010)
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42.
1940 Accesses
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Development of a blood-based gene expression algorithm for assessment of obstructive coronary artery disease in non-diabetic patients
Michael R Elashoff, James A Wingrove, Philip Beineke, Susan E Daniels, Whittemore G Tingley, Steven Rosenberg, Szilard Voros, William E Kraus, Geoffrey S Ginsburg, Robert S Schwartz, Stephen G Ellis, Naheem Tahirkheli, Ron Waksman, John McPherson, Alexandra J Lansky, Eric J Topol BMC Medical Genomics 2011, 4:26 (28 March 2011)
Abstract | Full text | PDF
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Editor’s summary
A validated biomarker signature of coronary artery disease (CAD) based on a non-invasive blood test of classifier genes and demographic factors may accurately asses the likelihood of obstructive CAD in non-diabetic patients.
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43.
1926 Accesses
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Identification of gene fusion transcripts by transcriptome sequencing in BRCA1-mutated breast cancers and cell lines
Kevin CH Ha, Emilie Lalonde, Lili Li, Luca Cavallone, Rachael Natrajan, Maryou B Lambros, Costas Mitsopoulos, Jarle Hakas, Iwanka Kozarewa, Kerry Fenwick, Chris J Lord, Alan Ashworth, Anne Vincent-Salomon, Mark Basik, Jorge S Reis-Filho, Jacek Majewski, William D Foulkes BMC Medical Genomics 2011, 4:75 (27 October 2011)
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44.
1906 Accesses
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Integrated analysis of DNA methylation and gene expression reveals specific signaling pathways associated with platinum resistance in ovarian cancer
Meng Li, Curt Balch, John S Montgomery, Mikyoung Jeong, Jae Chung, Pearlly Yan, Tim HM Huang, Sun Kim, Kenneth P Nephew BMC Medical Genomics 2009, 2:34 (8 June 2009)
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45.
1888 Accesses
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Meta-analysis of multiple microarray datasets reveals a common gene signature of metastasis in solid tumors
Marla H Daves, Susan G Hilsenbeck, Ching C Lau, Tsz-Kwong Man BMC Medical Genomics 2011, 4:56 (7 July 2011)
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46.
1857 Accesses
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Adipose tissue gene expression analysis reveals changes in inflammatory, mitochondrial respiratory and lipid metabolic pathways in obese insulin-resistant subjects
Jarkko Soronen, Pirkka-Pekka Laurila, Jussi Naukkarinen, Ida Surakka, Samuli Ripatti, Matti Jauhiainen, Vesa M Olkkonen, Hannele Yki-Järvinen BMC Medical Genomics 2012, 5:9 (3 April 2012)
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47.
1832 Accesses
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Cancer patient perceptions on the ethical and legal issues related to biobanking
Zubin Master, Jaime O Claudio, Christen Rachul, Jean CY Wang, Mark D Minden, Timothy Caulfield BMC Medical Genomics 2013, 6:8 (8 March 2013)
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Editor’s summary
In a survey of perceptions of leukemia patients towards biobanking research ethics, majorities favoured one-time consent and retaining the right to withdrawal, and almost all favoured being informed of incidental findings relevant to their health.
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48.
1829 Accesses
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Network analysis identifies a putative role for the PPAR and type 1 interferon pathways in glucocorticoid actions in asthmatics
Diego Diez, Susumu Goto, John V Fahy, David J Erle, Prescott G Woodruff, Åsa M Wheelock, Craig E Wheelock BMC Medical Genomics 2012, 5:27 (19 June 2012)
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49.
1821 Accesses
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An integrative approach to identifying cancer chemoresistance-associated pathways
Shih-Yi Chao, Jung-Hsien Chiang, A-Mei Huang, Woan-Shan Chang BMC Medical Genomics 2011, 4:23 (24 March 2011)
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50.
1806 Accesses
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Identification of DNA methylation changes associated with human gastric cancer
Jung-Hoon Park, Jinah Park, Jung Kyoon Choi, Jaemyun Lyu, Min-Gyun Bae, Young-Gun Lee, Jae-Bum Bae, Dong Yoon Park, Han-Kwang Yang, Tae-You Kim, Young-Joon Kim BMC Medical Genomics 2011, 4:82 (2 December 2011)
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