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Proteomics

This section covers all aspects of high-throughput proteomics, experimental and analytical approaches to proteome analysis, mass spectrometry, and also metabolomics.

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  1. Diapause is programmed developmental arrest coupled with the depression of metabolic activity and the enhancement of stress resistance. Pupal diapause is induced by environmental signals and is prepared during...

    Authors: Qi Zhang, Yu-Xuan Lu and Wei-Hua Xu

    Citation: BMC Genomics 2013 14:751

    Content type: Research article

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  2. “Stoichioproteomics” relates the elemental composition of proteins and proteomes to variation in the physiological and ecological environment. To help harness and explore the wealth of hypotheses made possible...

    Authors: James D J Gilbert, Claudia Acquisti, Holly M Martinson, James J Elser, Sudhir Kumar and William F Fagan

    Citation: BMC Genomics 2013 14:599

    Content type: Research article

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  3. Prion proteins conform a special class among amyloids due to their ability to transmit aggregative folds. Prions are known to act as infectious agents in neurodegenerative diseases in animals, or as key elemen...

    Authors: Vladimir Espinosa Angarica, Salvador Ventura and Javier Sancho

    Citation: BMC Genomics 2013 14:316

    Content type: Methodology article

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  4. Toxoplasmosis is caused by the apicomplexan parasite Toxoplasma gondii and can be acquired either congenitally or via the oral route. In the latter case, transmission is mediated by two distinct invasive stages, ...

    Authors: Alessia Possenti, Federica Fratini, Luca Fantozzi, Edoardo Pozio, Jitender P Dubey, Marta Ponzi, Elisabetta Pizzi and Furio Spano

    Citation: BMC Genomics 2013 14:183

    Content type: Research article

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  5. Simultaneous isolation of nucleic acids and proteins from a single biological sample facilitates meaningful data interpretation and reduces time, cost and sampling errors. This is particularly relevant for rar...

    Authors: André ES Simões, Diane M Pereira, Joana D Amaral, Ana F Nunes, Sofia E Gomes, Pedro M Rodrigues, Adrian C Lo, Rudi D'Hooge, Clifford J Steer, Stephen N Thibodeau, Pedro M Borralho and Cecília MP Rodrigues

    Citation: BMC Genomics 2013 14:181

    Content type: Methodology article

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  6. Known protein interaction networks have very particular properties. Old proteins tend to have more interactions than new ones. One of the best statistical representatives of this property is the node degree di...

    Authors: Piotr H Pawlowski, Szymon Kaczanowski and Piotr Zielenkiewicz

    Citation: BMC Genomics 2013 14:172

    Content type: Research article

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  7. Proteogenomic mapping is an approach that uses mass spectrometry data from proteins to directly map protein-coding genes and could aid in locating translational regions in the human genome. In concert with the...

    Authors: Jainab Khatun, Yanbao Yu, John A Wrobel, Brian A Risk, Harsha P Gunawardena, Ashley Secrest, Wendy J Spitzer, Ling Xie, Li Wang, Xian Chen and Morgan C Giddings

    Citation: BMC Genomics 2013 14:141

    Content type: Research article

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  8. Translational and post-translational protein modifications play a key role in the response of plants to pathogen infection. Among the latter, phosphorylation is critical in modulating protein structure, locali...

    Authors: Paolo Margaria, Simona Abbà and Sabrina Palmano

    Citation: BMC Genomics 2013 14:38

    Content type: Research article

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  9. Understanding how human cells in tissue culture adapt to hypothermia may aid in developing new clinical procedures for improved ischemic and hypothermic protection. Human coronary artery endothelial cells grow...

    Authors: Michael AJ Zieger, Mahesh P Gupta and Mu Wang

    Citation: BMC Genomics 2011 12:630

    Content type: Research article

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  10. To investigate the molecular and cellular pathogenesis underlying myocarditis, we used an experimental autoimmune myocarditis (EAM)-induced heart failure rat model that represents T cell mediated postinflammat...

    Authors: Joo Hee Chung, Hee Jung Choi, Soo Young Kim, Kwan Soo Hong, Soo Kee Min, Myung Hee Nam, Chan Wha Kim, Young Ho Koh and Jong Bok Seo

    Citation: BMC Genomics 2011 12:520

    Content type: Research article

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  11. The mitochondrion is an essential organelle which plays important roles in diverse biological processes, such as metabolism, apoptosis, signal transduction and cell cycle. Characterizing protein-protein intera...

    Authors: Zuguang Gu, Jie Li, Song Gao, Ming Gong, Junling Wang, Hua Xu, Chenyu Zhang and Jin Wang

    Citation: BMC Genomics 2011 12:335

    Content type: Database

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  12. Seminal fluid plays an important role in successful fertilization, but knowledge of the full suite of proteins transferred from males to females during copulation is incomplete. The list of ejaculated proteins...

    Authors: Matthew D Dean, Geoffrey D Findlay, Michael R Hoopmann, Christine C Wu, Michael J MacCoss, Willie J Swanson and Michael W Nachman

    Citation: BMC Genomics 2011 12:306

    Content type: Research article

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  13. In vitro cell systems together with omics methods represent promising alternatives to conventional animal models for toxicity testing. Transcriptomic and proteomic approaches have been widely applied in vitro but...

    Authors: Ainhoa Ruiz-Aracama, Ad Peijnenburg, Jos Kleinjans, Danyel Jennen, Joost van Delft, Caroline Hellfrisch and Arjen Lommen

    Citation: BMC Genomics 2011 12:251

    Content type: Research article

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  14. Chlamydiae are obligate intracellular bacteria that multiply in a vacuolar compartment, the inclusion. Several chlamydial proteins containing a bilobal hydrophobic domain are translocated by a type III secretion ...

    Authors: Pierre Dehoux, Rhonda Flores, Catherine Dauga, Guangming Zhong and Agathe Subtil

    Citation: BMC Genomics 2011 12:109

    Content type: Research article

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  15. Due to their high level of genotypic and phenotypic variability, Mus spretus strains were introduced in laboratories to investigate the genetic determinism of complex phenotypes including quantitative trait loci....

    Authors: Nisrine Boumahrou, Claudia Bevilacqua, Christian Beauvallet, Guy Miranda, Sanda Andrei, Emmanuelle Rebours, Jean-Jacques Panthier, Sylvain Bellier and Patrice Martin

    Citation: BMC Genomics 2011 12:80

    Content type: Research article

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  16. Although primarily known as the site of ribosome subunit production, the nucleolus is involved in numerous and diverse cellular processes. Recent large-scale proteomics projects have identified thousands of hu...

    Authors: Michelle S Scott, François-Michel Boisvert, Angus I Lamond and Geoffrey J Barton

    Citation: BMC Genomics 2011 12:74

    Content type: Research article

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  17. Tuberculosis is an infectious bacterial disease in humans caused primarily by Mycobacterium tuberculosis, and infects one-third of the world's total population. Mycobacterium bovis bacillus Calmette-Guérin (BCG) ...

    Authors: Jianhua Zheng, Candong Wei, Lina Zhao, Liguo Liu, Wenchuan Leng, Weijun Li and Qi Jin

    Citation: BMC Genomics 2011 12:40

    Content type: Research article

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  18. Peptide spectrum matching (PSM) is the standard method in shotgun proteomics data analysis. It relies on the availability of an accurate and complete sample proteome that is used to make interpretation of the ...

    Authors: Koos Rooijers, Carolin Kolmeder, Catherine Juste, Joël Doré, Mark de Been, Sjef Boeren, Pilar Galan, Christian Beauvallet, Willem M de Vos and Peter J Schaap

    Citation: BMC Genomics 2011 12:6

    Content type: Research article

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  19. While the number of newly sequenced genomes and genes is constantly increasing, elucidation of their function still is a laborious and time-consuming task. This has led to the development of a wide range of me...

    Authors: Samira Jaeger, Christine T Sers and Ulf Leser

    Citation: BMC Genomics 2010 11:717

    Content type: Research article

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  20. Proteins may evolve through the recruitment and modification of discrete domains, and in many cases, protein action can be dissected at the domain level. PDZ domains are found in many important structural and ...

    Authors: Nicolas Lenfant, Jolanta Polanowska, Sophie Bamps, Shizue Omi, Jean-Paul Borg and Jérôme Reboul

    Citation: BMC Genomics 2010 11:671

    Content type: Research article

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  21. Hypocrea jecorina (anamorph Trichoderma reesei) is a filamentous ascomycete of industrial importance due to its hydrolases (e.g., xylanases and cellulases). The regulation of gene expression can influence the com...

    Authors: Astrid R Mach-Aigner, Karin Grosstessner-Hain, Marcio J Poças-Fonseca, Karl Mechtler and Robert L Mach

    Citation: BMC Genomics 2010 11:644

    Content type: Methodology article

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  22. The ecological niche occupied by a fungal species, its pathogenicity and its usefulness as a microbial cell factory to a large degree depends on its secretome. Protein secretion usually requires the presence o...

    Authors: Machtelt Braaksma, Elena S Martens-Uzunova, Peter J Punt and Peter J Schaap

    Citation: BMC Genomics 2010 11:584

    Content type: Research article

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  23. In addition to acting as an RNA quality control pathway, nonsense-mediated mRNA decay (NMD) plays roles in regulating normal gene expression. In particular, the extent to which alternative splicing is coupled ...

    Authors: Nicholas J McGlincy, Lit-Yeen Tan, Nicodeme Paul, Mihaela Zavolan, Kathryn S Lilley and Christopher WJ Smith

    Citation: BMC Genomics 2010 11:565

    Content type: Research article

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The editors of BMC Genomics support initiatives that expedite the peer review process and are happy to consider manuscripts that have been reviewed in Peerage of Science. Please indicate in your cover letter if this applies to your manuscript.