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  1. Content type: Research article

    The methods used for sample selection and processing can have a strong influence on the expression values obtained through microarray profiling. Laser capture microdissection (LCM) provides higher specificity ...

    Authors: Eric W Klee, Sibel Erdogan, Lori Tillmans, Farhad Kosari, Zhifu Sun, Dennis A Wigle, Ping Yang, Marie C Aubry and George Vasmatzis

    Citation: BMC Medical Genomics 2009 2:13

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  2. Content type: Research article

    Gulf War Illness (GWI) remains a serious health consequence for at least 11,000 veterans of the first Gulf War in the early 1990s. Our understanding of the health consequences that resulted remains inadequate,...

    Authors: Toni Whistler, Mary Ann Fletcher, William Lonergan, Xiao-R Zeng, Jin-Mann Lin, Arthur LaPerriere, Suzanne D Vernon and Nancy G Klimas

    Citation: BMC Medical Genomics 2009 2:12

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  3. Content type: Research article

    Aberrant DNA methylation of CpG islands of cancer-related genes is among the earliest and most frequent alterations in cancerogenesis and might be of value for either diagnosing cancer or evaluating recurrent ...

    Authors: Ada Piepoli, Rosa Cotugno, Giuseppe Merla, Annamaria Gentile, Bartolomeo Augello, Michele Quitadamo, Antonio Merla, Anna Panza, Massimo Carella, Rosalia Maglietta, Annarita D'Addabbo, Nicola Ancona, Saverio Fusilli, Francesco Perri and Angelo Andriulli

    Citation: BMC Medical Genomics 2009 2:11

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  4. Content type: Research article

    Novel tuberculosis (TB) vaccines recently tested in humans have been designed to boost immunity induced by the current vaccine, Mycobacterium bovis Bacille Calmette-Guérin (BCG). Because BCG vaccination is used e...

    Authors: Helen A Fletcher, Alana Keyser, Mark Bowmaker, Peter C Sayles, Gilla Kaplan, Greg Hussey, Adrian VS Hill and Willem A Hanekom

    Citation: BMC Medical Genomics 2009 2:10

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  5. Content type: Research article

    While standard reductionist approaches have provided some insights into specific gene polymorphisms and molecular pathways involved in disease pathogenesis, our understanding of complex traits such as atherosc...

    Authors: Mark Barton Frank, Shirley Wang, Amita Aggarwal, Nicholas Knowlton, Kaiyu Jiang, Yanmin Chen, Ryan McKee, Brad Chaser, Timothy McGhee, Jeanette Osban and James N Jarvis

    Citation: BMC Medical Genomics 2009 2:9

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  6. Content type: Technical advance

    A major challenge facing DNA copy number (CN) studies of tumors is that most banked samples with extensive clinical follow-up information are Formalin-Fixed Paraffin Embedded (FFPE). DNA from FFPE samples gene...

    Authors: Yuker Wang, Victoria EH Carlton, George Karlin-Neumann, Ronald Sapolsky, Li Zhang, Martin Moorhead, Zhigang C Wang, Andrea L Richardson, Robert Warren, Axel Walther, Melissa Bondy, Aysegul Sahin, Ralf Krahe, Musaffe Tuna, Patricia A Thompson, Paul T Spellman…

    Citation: BMC Medical Genomics 2009 2:8

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  7. Content type: Research article

    Circadian (diurnal) rhythm is an integral part of the physiology of the body; specifically, sleep, feeding behavior and metabolism are tightly linked to the light-dark cycle dictated by earth's rotation.

    Authors: Andrey Loboda, Walter K Kraft, Bernard Fine, Jeffrey Joseph, Michael Nebozhyn, Chunsheng Zhang, Yudong He, Xia Yang, Christopher Wright, Mark Morris, Ira Chalikonda, Mark Ferguson, Valur Emilsson, Amy Leonardson, John Lamb, Hongyue Dai…

    Citation: BMC Medical Genomics 2009 2:7

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  8. Content type: Correspondence

    The Gene Ontology Project provides structured controlled vocabularies for molecular biology that can be used for the functional annotation of genes and gene products. In a collaboration between the Gene Ontolo...

    Authors: Erika Feltrin, Stefano Campanaro, Alexander D Diehl, Elisabeth Ehler, Georgine Faulkner, Jennifer Fordham, Chiara Gardin, Midori Harris, David Hill, Ralph Knoell, Paolo Laveder, Lorenza Mittempergher, Alessandra Nori, Carlo Reggiani, Vincenzo Sorrentino, Pompeo Volpe…

    Citation: BMC Medical Genomics 2009 2:6

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  9. Content type: Research article

    Hepatocellular carcinoma (HCC) is one of the most common cancers worldwide and the second cancer killer in China. The initiation and malignant transformation of cancer result from accumulation of genetic chang...

    Authors: Hui Dong, Xijin Ge, Yan Shen, Linlei Chen, Yalin Kong, Hongyi Zhang, Xiaobo Man, Liang Tang, Hong Yuan, Hongyang Wang, Guoping Zhao and Weirong Jin

    Citation: BMC Medical Genomics 2009 2:5

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  10. Content type: Research article

    Serum protein profiling seems promising for early detection of breast cancer. However, the approach is also criticized, partly because of difficulties in validating discriminatory proteins. This study's aim is...

    Authors: Annemieke WJ van Winden, Marie-Christine W Gast, Jos H Beijnen, Emiel JTh Rutgers, Diederick E Grobbee, Petra HM Peeters and Carla H van Gils

    Citation: BMC Medical Genomics 2009 2:4

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  11. Content type: Research article

    Gene expression patterns provide a detailed view of cellular functions. Comparison of profiles in disease vs normal conditions provides insights into the processes underlying disease progression. However, avai...

    Authors: Burak Kutlu, David Burdick, David Baxter, Joanne Rasschaert, Daisy Flamez, Decio L Eizirik, Nils Welsh, Nathan Goodman and Leroy Hood

    Citation: BMC Medical Genomics 2009 2:3

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  12. Content type: Review

    The production of peroxide and superoxide is an inevitable consequence of aerobic metabolism, and while these particular 'reactive oxygen species' (ROSs) can exhibit a number of biological effects, they are no...

    Authors: Douglas B Kell

    Citation: BMC Medical Genomics 2009 2:2

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  13. Content type: Research article

    Genome wide association studies have been hugely successful in identifying disease risk variants, yet most variants do not lead to coding changes and how variants influence biological function is usually unknown.

    Authors: Graham A Heap, Gosia Trynka, Ritsert C Jansen, Marcel Bruinenberg, Morris A Swertz, Lotte C Dinesen, Karen A Hunt, Cisca Wijmenga, David A vanHeel and Lude Franke

    Citation: BMC Medical Genomics 2009 2:1

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  14. Content type: Research article

    Reliability of real-time PCR (RT-qPCR) data is dependent on the use of appropriate reference gene(s) for normalization. To date, no validated reference genes have been reported for normalizing gene expression ...

    Authors: Anna P Pilbrow, Leigh J Ellmers, Michael A Black, Christine S Moravec, Wendy E Sweet, Richard W Troughton, A Mark Richards, Chris M Frampton and Vicky A Cameron

    Citation: BMC Medical Genomics 2008 1:64

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  15. Content type: Research article

    The existence of a radiation bystander effect, in which non-irradiated cells respond to signals from irradiated cells, is now well established. It raises concerns for the interpretation of risks arising from e...

    Authors: Shanaz A Ghandhi, Benjamin Yaghoubian and Sally A Amundson

    Citation: BMC Medical Genomics 2008 1:63

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  16. Content type: Research article

    Recent advances in whole-genome association studies (WGASs) for human cancer risk are beginning to provide the part lists of low-penetrance susceptibility genes. However, statistical analysis in these studies ...

    Authors: Núria Bonifaci, Antoni Berenguer, Javier Díez, Oscar Reina, Ignacio Medina, Joaquín Dopazo, Víctor Moreno and Miguel Angel Pujana

    Citation: BMC Medical Genomics 2008 1:62

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  17. Content type: Research article

    Elevated plasma cholesterol promotes the formation of atherosclerotic lesions in which monocyte-derived lipid-laden macrophages are frequently found. To analyze, if circulating monocytes already show increased...

    Authors: Sandy Mosig, Knut Rennert, Petra Büttner, Siegfried Krause, Dieter Lütjohann, Muhidien Soufi, Regine Heller and Harald Funke

    Citation: BMC Medical Genomics 2008 1:60

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  18. Content type: Research article

    We performed a time-course microarray experiment to define the transcriptional response to carboplatin in vitro, and to correlate this with clinical outcome in epithelial ovarian cancer (EOC). RNA was isolated fr...

    Authors: Panagiotis A Konstantinopoulos, Elena Fountzilas, Kamana Pillay, Luiz F Zerbini, Towia A Libermann, Stephen A Cannistra and Dimitrios Spentzos

    Citation: BMC Medical Genomics 2008 1:59

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  19. Content type: Research article

    To discover cancer specific DNA methylation markers, large-scale screening methods are widely used. The pharmacological unmasking expression microarray approach is an elegant method to enrich for genes that ar...

    Authors: Maté Ongenaert, G Bea A Wisman, Haukeline H Volders, Alice J Koning, Ate GJ van der Zee, Wim van Criekinge and Ed Schuuring

    Citation: BMC Medical Genomics 2008 1:57

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  20. Content type: Research article

    Head and neck squamous cell carcinoma (HNSCC) is one of the most common malignancies in humans. The average 5-year survival rate is one of the lowest among aggressive cancers, showing no significant improvemen...

    Authors: Nelson JF Silveira, Leonardo Varuzza, Ariane Machado-Lima, Marcelo S Lauretto, Daniel G Pinheiro, Rodrigo V Rodrigues, Patrícia Severino, Francisco G Nobrega, Wilson A Silva Jr, Carlos A de B Pereira and Eloiza H Tajara

    Citation: BMC Medical Genomics 2008 1:56

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  21. Content type: Research article

    Studies on asbestos-induced tumourigenesis have indicated the role of, e.g., reactive oxygen/nitrogen species, mitochondria, as well as NF-κB and MAPK signalling pathways. The exact molecular mechanisms contri...

    Authors: Salla Ruosaari, Tuija Hienonen-Kempas, Anne Puustinen, Virinder K Sarhadi, Jaakko Hollmén, Sakari Knuutila, Juha Saharinen, Harriet Wikman and Sisko Anttila

    Citation: BMC Medical Genomics 2008 1:55

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  22. Content type: Research article

    Overall gastric cancer survival remains poor mainly because there are no reliable methods for identifying highly curable early stage disease. Multi-protein profiling of gastric fluids, obtained from the anatom...

    Authors: Oi Lian Kon, Tai-Tung Yip, Meng Fatt Ho, Weng Hoong Chan, Wai Keong Wong, Soo Yong Tan, Wai Har Ng, Siok Yuen Kam, Alvin KH Eng, Patrick Ho, Rosa Viner, Hock Soo Ong and M Priyanthi Kumarasinghe

    Citation: BMC Medical Genomics 2008 1:54

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  23. Content type: Research article

    T-cell activation is an essential step of immune response. The process of proper T-cell activation is strictly monitored and regulated by apoptosis signaling. Yet, regulation of apoptosis, an integral and cruc...

    Authors: Min Wang, Dirk Windgassen and Eleftherios T Papoutsakis

    Citation: BMC Medical Genomics 2008 1:53

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  24. Content type: Research article

    Glioblastomas are the most common primary brain tumour in adults. While the prognosis for patients is poor, gene expression profiling has detected signatures that can sub-classify GBMs relative to histopatholo...

    Authors: Yohan Lee, Adrienne C Scheck, Timothy F Cloughesy, Albert Lai, Jun Dong, Haumith K Farooqi, Linda M Liau, Steve Horvath, Paul S Mischel and Stanley F Nelson

    Citation: BMC Medical Genomics 2008 1:52

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  25. Content type: Technical advance

    Publicly available data repositories facilitate the sharing of an ever-increasing amount of microarray data. However, these datasets remain highly underutilized. Reutilizing the data could offer insights into ...

    Authors: Jessica D Tenenbaum, Michael G Walker, Paul J Utz and Atul J Butte

    Citation: BMC Medical Genomics 2008 1:51

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  26. Content type: Research article

    It has previously been shown that specific microdeletions and microduplications, many of which also associated with cognitive impairment (CI), can present with autism spectrum disorders (ASDs). Multiplex ligat...

    Authors: Guiqing Cai, Lisa Edelmann, Juliet E Goldsmith, Ninette Cohen, Alisa Nakamine, Jennifer G Reichert, Ellen J Hoffman, Danielle M Zurawiecki, Jeremy M Silverman, Eric Hollander, Latha Soorya, Evdokia Anagnostou, Catalina Betancur and Joseph D Buxbaum

    Citation: BMC Medical Genomics 2008 1:50

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  27. Content type: Research article

    Genistein is an isoflavonoid present in soybeans that exhibits anti-carcinogenic properties. The issue of genistein as a potential anti-cancer drug has been addressed in some papers, but comprehensive genomic ...

    Authors: Christian RA Regenbrecht, Marc Jung, Hans Lehrach and James Adjaye

    Citation: BMC Medical Genomics 2008 1:49

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  28. Content type: Research article

    The etiology of many chronic diseases involves interactions between environmental factors and genes that modulate physiological processes. Understanding interactions between environmental chemicals and genes/p...

    Authors: Allan P Davis, Cynthia G Murphy, Michael C Rosenstein, Thomas C Wiegers and Carolyn J Mattingly

    Citation: BMC Medical Genomics 2008 1:48

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  29. Content type: Research article

    Hypermethylation of promoter CpG islands with associated loss of gene expression, and hypomethylation of CpG-rich repetitive elements that may destabilize the genome are common events in most, if not all, epit...

    Authors: George S Watts, Bernard W Futscher, Nicholas Holtan, Koen DeGeest, Frederick E Domann and Stephen L Rose

    Citation: BMC Medical Genomics 2008 1:47

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  30. Content type: Research article

    Inflammation is a hallmark of many human diseases. Elucidating the mechanisms underlying systemic inflammation has long been an important topic in basic and clinical research. When primary pathogenetic events ...

    Authors: Bor-Sen Chen, Shih-Kuang Yang, Chung-Yu Lan and Yung-Jen Chuang

    Citation: BMC Medical Genomics 2008 1:46

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  31. Content type: Research article

    While BMPR2 mutation strongly predisposes to pulmonary arterial hypertension (PAH), only 20% of mutation carriers develop clinical disease. This finding suggests that modifier genes contribute to FPAH clinical...

    Authors: James West, Joy Cogan, Mark Geraci, Linda Robinson, John Newman, John A Phillips, Kirk Lane, Barbara Meyrick and Jim Loyd

    Citation: BMC Medical Genomics 2008 1:45

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  32. Content type: Research article

    Late-onset Alzheimer's disease (LOAD) is an age related neurodegenerative disease with a high prevalence that places major demands on healthcare resources in societies with increasingly aged populations. The o...

    Authors: Richard Abraham, Valentina Moskvina, Rebecca Sims, Paul Hollingworth, Angharad Morgan, Lyudmila Georgieva, Kimberley Dowzell, Sven Cichon, Axel M Hillmer, Michael C O'Donovan, Julie Williams, Michael J Owen and George Kirov

    Citation: BMC Medical Genomics 2008 1:44

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  33. Content type: Research article

    The regulatory subunit of cAMP-dependent protein kinase (PKA) exists in two isoforms, RI and RII, which distinguish the PKA isozymes, type I (PKA-I) and type II (PKA-II). Evidence obtained from a variety of di...

    Authors: Chris Cheadle, Maria Nesterova, Tonya Watkins, Kathleen C Barnes, John C Hall, Antony Rosen, Kevin G Becker and Yoon S Cho-Chung

    Citation: BMC Medical Genomics 2008 1:43

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  34. Content type: Research article

    The number of gene expression studies in the public domain is rapidly increasing, representing a highly valuable resource. However, dataset-specific bias precludes meta-analysis at the raw transcript level, ev...

    Authors: Andrew H Sims, Graeme J Smethurst, Yvonne Hey, Michal J Okoniewski, Stuart D Pepper, Anthony Howell, Crispin J Miller and Robert B Clarke

    Citation: BMC Medical Genomics 2008 1:42

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  35. Content type: Research article

    The rexinoid bexarotene (LGD1069, Targretin) is a highly selective retinoid × receptor (RXR) agonist that inhibits the growth of pre-malignant and malignant breast cells. Bexarotene was shown to suppress the d...

    Authors: Martin C Abba, Yuhui Hu, Carla C Levy, Sally Gaddis, Frances S Kittrell, Yun Zhang, Jamal Hill, Reid P Bissonnette, Daniel Medina, Powel H Brown and C Marcelo Aldaz

    Citation: BMC Medical Genomics 2008 1:40

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  36. Content type: Research article

    Numerous studies have used microarrays to identify gene signatures for predicting cancer patient clinical outcome and responses to chemotherapy. However, the potential impact of gene expression profiling in ca...

    Authors: Jiangang Liu, Andrew Campen, Shuguang Huang, Sheng-Bin Peng, Xiang Ye, Mathew Palakal, A Keith Dunker, Yuni Xia and Shuyu Li

    Citation: BMC Medical Genomics 2008 1:39

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  37. Content type: Research article

    Strong epidemiologic evidence correlates tobacco use with a variety of serious adverse health effects, but the biological mechanisms that produce these effects remain elusive.

    Authors: Peter C Charles, Brian D Alder, Eleanor G Hilliard, Jonathan C Schisler, Robert E Lineberger, Joel S Parker, Sabeen Mapara, Samuel S Wu, Andrea Portbury, Cam Patterson and George A Stouffer

    Citation: BMC Medical Genomics 2008 1:38

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  38. Content type: Research article

    The role of microRNAs (miRNAs) in multiple myeloma (MM) has yet to be fully elucidated. To identify miRNAs that are potentially deregulated in MM, we investigated those mapping within transcription units, base...

    Authors: Domenica Ronchetti, Marta Lionetti, Laura Mosca, Luca Agnelli, Adrian Andronache, Sonia Fabris, Giorgio Lambertenghi Deliliers and Antonino Neri

    Citation: BMC Medical Genomics 2008 1:37

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  39. Content type: Research article

    Neuroblastic tumours (NBTs) represent a heterogeneous spectrum of neoplastic diseases associated with multiple genetic alterations. Structural and numerical chromosomal changes are frequent and are predictive ...

    Authors: Cinzia Lavarino, Idoia Garcia, Carlos Mackintosh, Nai-Kong V Cheung, Gema Domenech, José Ríos, Noelia Perez, Eva Rodríguez, Carmen de Torres, William L Gerald, Esperanza Tuset, Sandra Acosta, Helena Beleta, Enrique de Álava and Jaume Mora

    Citation: BMC Medical Genomics 2008 1:36

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  40. Content type: Research article

    Methotrexate is one of the earliest cytotoxic drugs used in cancer therapy, and despite the isolation of multiple other folate antagonists, methotrexate maintains its significant role as a treatment for differ...

    Authors: Elisabet Selga, Cristina Morales, Véronique Noé, Miguel A Peinado and Carlos J Ciudad

    Citation: BMC Medical Genomics 2008 1:35

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  41. Content type: Research article

    Expression microarray analyses of epithelial ovarian cancer (EOC) cell lines may be exploited to elucidate genetic and epigenetic events important in this disease. A possible variable is the influence of growt...

    Authors: Neal AL Cody, Magdalena Zietarska, Ali Filali-Mouhim, Diane M Provencher, Anne-Marie Mes-Masson and Patricia N Tonin

    Citation: BMC Medical Genomics 2008 1:34

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  42. Content type: Technical advance

    Recent work, using both cell culture model systems and tumour derived cell lines, suggests that the differential recruitment into polysomes of mRNA populations may be sufficient to initiate and maintain tumour...

    Authors: Raphael Genolet, Tanguy Araud, Laetitia Maillard, Pascale Jaquier-Gubler and Joseph Curran

    Citation: BMC Medical Genomics 2008 1:33

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  43. Content type: Research article

    Mechanisms underlying the malignant development in bladder cancer are still not well understood. Lipolysis stimulated lipoprotein receptor (LSR) has previously been found to be upregulated by P53. Furthermore,...

    Authors: Malene Herbsleb, Karin Birkenkamp-Demtroder, Thomas Thykjaer, Carsten Wiuf, Anne-Mette K Hein, Torben F Ørntoft and Lars Dyrskjøt

    Citation: BMC Medical Genomics 2008 1:31

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  44. Content type: Research article

    In periodontitis, treatment aimed at controlling the periodontal biofilm infection results in a resolution of the clinical and histological signs of inflammation. Although the cell types found in periodontal t...

    Authors: Thomas Beikler, Ulrike Peters, Karola Prior, Martin Eisenacher and Thomas F Flemmig

    Citation: BMC Medical Genomics 2008 1:30

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  45. Content type: Research article

    Persistent infection by high risk HPV types (e.g. HPV-16, -18, -31, and -45) is the main risk factor for development of cervical intraepithelial neoplasia and cervical cancer. Tumor necrosis factor (TNF) is a ...

    Authors: Lara Termini, Enrique Boccardo, Gustavo H Esteves, Roberto Hirata Jr, Waleska K Martins, Anna Estela L Colo, E Jordão Neves, Luisa Lina Villa and Luiz FL Reis

    Citation: BMC Medical Genomics 2008 1:29

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