Search Results - "Journal of proteomics"

ProLuCID: An improved SEQUEST-like algorithm with enhanced sensitivity and specificity by Xu, T., Park, S.K., Venable, J.D., Wohlschlegel, J.A., Diedrich, J.K., Cociorva, D., Lu, B., Liao, L., Hewel, J., Han, X., Wong, C.C.L., Fonslow, B., Delahunty, C., Gao, Y., Shah, H., Yates, J.R.

“…ProLuCID, a new algorithm for peptide identification using tandem mass spectrometry and protein sequence databases has been developed. This algorithm uses a…”
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MMEASE: Online meta-analysis of metabolomic data by enhanced metabolite annotation, marker selection and enrichment analysis by Yang, Qingxia, Li, Bo, Chen, Sijie, Tang, Jing, Li, Yinghong, Li, Yi, Zhang, Song, Shi, Cheng, Zhang, Ying, Mou, Minjie, Xue, Weiwei, Zhu, Feng

“…Large-scale and long-term metabolomic studies have attracted widespread attention in the biomedical studies yet remain challenging despite recent technique…”
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Secreted protein eco-corona mediates uptake and impacts of polystyrene nanoparticles on Daphnia magna by Nasser, Fatima, Lynch, Iseult

“…Nanoparticles (NPs) are defined as having at least one external dimension between 1 and 100 nm. Due to their small size, NPs have a large surface area to…”
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SAINTexpress: Improvements and additional features in Significance Analysis of INTeractome software by Teo, Guoci, Liu, Guomin, Zhang, Jianping, Nesvizhskii, Alexey I., Gingras, Anne-Claude, Choi, Hyungwon

“…Significance Analysis of INTeractome (SAINT) is a statistical method for probabilistically scoring protein–protein interaction data from affinity…”
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Milk microbiota: Characterization methods and role in cheese production by Tilocca, Bruno, Costanzo, Nicola, Morittu, Valeria Maria, Spina, Anna Antonella, Soggiu, Alessio, Britti, Domenico, Roncada, Paola, Piras, Cristian

“…Milk is a complex body fluid aimed at addressing the nutritional and defensive needs of the mammal's newborns. Harbored microbiota plays a pivotal role…”
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Exosomes: Extracellular organelles important in intercellular communication by Mathivanan, Suresh, Ji, Hong, Simpson, Richard J.

“…In addition to intracellular organelles, eukaryotic cells also contain extracellular organelles that are released, or shed, into the microenvironment. These…”
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Proteomics characterization of extracellular vesicles sorted by flow cytometry reveals a disease-specific molecular cross-talk from cerebrospinal fluid and tears in multiple sclerosis by Pieragostino, Damiana, Lanuti, Paola, Cicalini, Ilaria, Cufaro, Maria Concetta, Ciccocioppo, Fausta, Ronci, Maurizio, Simeone, Pasquale, Onofrj, Marco, van der Pol, Edwin, Fontana, Antonella, Marchisio, Marco, Del Boccio, Piero

“…Several proteomics studies have been conducted to identify new cerebrospinal fluid (CSF) biomarkers in Multiple Sclerosis (MuS). However, the complexity of CSF…”
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Pain therapeutics from cone snail venoms: From Ziconotide to novel non-opioid pathways by Safavi-Hemami, Helena, Brogan, Shane E., Olivera, Baldomero M.

“…There have been numerous attempts to develop non-opioid drugs for severe pain, but the vast majority of these efforts have failed. A notable exception is…”
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UniprotR: Retrieving and visualizing protein sequence and functional information from Universal Protein Resource (UniProt knowledgebase) by Soudy, Mohamed, Anwar, Ali Mostafa, Ahmed, Eman Ali, Osama, Aya, Ezzeldin, Shahd, Mahgoub, Sebaey, Magdeldin, Sameh

“…UniprotR is a software package designed to easily retrieve, cluster and visualize protein data from UniProt knowledgebase (UniProtKB) using R language. The…”
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Semen proteomics and male infertility by Jodar, Meritxell, Soler-Ventura, Ada, Oliva, Rafael

“…Semen is a complex body fluid containing an admixture of spermatozoa suspended in secretions from the testes and epididymis which are mixed at the time of…”
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Lysine acetylation and cancer: A proteomics perspective by Gil, Jeovanis, Ramírez-Torres, Alberto, Encarnación-Guevara, Sergio

“…Lysine acetylation is a reversible modification controlled by two groups of enzymes: lysine acetyltransferases (KATs) and lysine deacetylases (KDACs)…”
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Plant proteome changes under abiotic stress — Contribution of proteomics studies to understanding plant stress response by Kosová, Klára, Vítámvás, Pavel, Prášil, Ilja Tom, Renaut, Jenny

“…Plant acclimation to stress is associated with profound changes in proteome composition. Since proteins are directly involved in plant stress response,…”
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Review on proteomics for food authentication by Ortea, Ignacio, O'Connor, Gavin, Maquet, Alain

“…Consumers have the right to know what is in the food they are eating. Accordingly, European and global food regulations require that the provenance of the food…”
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Proximity biotinylation and affinity purification are complementary approaches for the interactome mapping of chromatin-associated protein complexes by Lambert, Jean-Philippe, Tucholska, Monika, Go, Christopher, Knight, James D.R., Gingras, Anne-Claude

“…Mapping protein–protein interactions for chromatin-associated proteins remains challenging. Here we explore the use of BioID, a proximity biotinylation…”
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Phylovenomics of Daboia russelii across the Indian subcontinent. Bioactivities and comparative in vivo neutralization and in vitro third-generation antivenomics of antivenoms against venoms from India, Bangladesh and Sri Lanka by Pla, Davinia, Sanz, Libia, Quesada-Bernat, Sarai, Villalta, Mauren, Baal, Joshua, Chowdhury, Mohammad Abdul Wahed, León, Guillermo, Gutiérrez, José M., Kuch, Ulrich, Calvete, Juan J.

“…Russell's viper (Daboia russelii) is, together with Naja naja, Bungarus caeruleus and Echis carinatus, a member of the medically important ‘Big Four’ species…”
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Acute phase proteins in ruminants by Ceciliani, F., Ceron, J.J., Eckersall, P.D., Sauerwein, H.

“…The physiological response to infections and injuries involves local inflammation and the initiation of events leading to a systemic response, also called…”
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Applications of lipidomics in goat meat products: Biomarkers, structure, nutrition interface and future perspectives by Jia, Wei, Di, Chenna, Shi, Lin

“…Goat meat, as a superior product including low lipids, low cholesterol contents and high-quality proteins, becomes the superior food for the national market…”
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Quantitative mass spectrometry-based multiplexing compares the abundance of 5000 S. cerevisiae proteins across 10 carbon sources by Paulo, Joao A., O'Connell, Jeremy D., Everley, Robert A., O'Brien, Jonathon, Gygi, Micah A., Gygi, Steven P.

“…The budding yeast Saccharomyces cerevisiae is a model system for investigating biological processes. Cellular events are known to be dysregulated due to shifts…”
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MALDI imaging mass spectrometry: Spatial molecular analysis to enable a new age of discovery by Gessel, Megan M., Norris, Jeremy L., Caprioli, Richard M.

“…Matrix-assisted laser desorption/ionization imaging mass spectrometry (MALDI IMS) combines the sensitivity and selectivity of mass spectrometry with spatial…”
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Foodborne pathogens and their toxins by Martinović, Tamara, Andjelković, Uroš, Gajdošik, Martina Šrajer, Rešetar, Dina, Josić, Djuro

“…Foodborne pathogens, mostly bacteria and fungi, but also some viruses, prions and protozoa, contaminate food during production and processing, but also during…”
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