{"database":"MassIVE","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://massive.ucsd.edu/v01/MSV000079704/"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":{"citationCount":0,"reanalysisCount":0,"viewCount":0,"searchCount":0},"additional":{"omics_type":["Proteomics"],"submitter":["Yoshihiro Kawaoka, Katrina Waters, Richard Smith and Thomas Metz"],"instrument_platform":["GC-MS"],"species":["Homo Sapiens (ncbitaxon:9606)"],"full_dataset_link":["https://massive.ucsd.edu/ProteoSAFe/dataset.jsp?task=248e5e9dc4bf4d9d8704c85bec8e1f18"],"sample_protocol":[""],"repository":["MassIVE"],"file_size":["360"],"ptm_modification":["MS:1002864 - No post-translational-modifications are included in the identified peptides of this dataset"],"data_protocol":[""],"pubmed_abstract":["Human infections caused by viral pathogens trigger a complex gamut of host responses that limit disease, resolve infection, generate immunity, and contribute to severe disease or death. Here, we present experimental methods and multi-omics data capture approaches representing the global host response to infection generated from 45 individual experiments involving human viruses from the Orthomyxoviridae, Filoviridae, Flaviviridae, and Coronaviridae families. Analogous experimental designs were implemented across human or mouse host model systems, longitudinal samples were collected over defined time courses, and global multi-omics data (transcriptomics, proteomics, metabolomics, and lipidomics) were acquired by microarray, RNA sequencing, or mass spectrometry analyses. For comparison, we have included transcriptomics datasets from cells treated with type I and type II human interferon. Raw multi-omics data and metadata were deposited in public repositories, and we provide a central location linking the raw data with experimental metadata and ready-to-use, quality-controlled, statistically processed multi-omics datasets not previously available in any public repository. This compendium of infection-induced host response data for reuse will be useful for those endeavouring to understand viral disease pathophysiology and network biology.","We propose the use of an approach to evaluation that can be undertaken in a clinical setting when concerns regarding child sexual abuse are unclear or ambiguous and other systems are not involved, thus providing an option for the nondisclosing child often discussed in the \"delayed disclosure\" literature. This approach can also be appropriate for a child with a questionable prior disclosure not being served by other intervention systems. We have labeled this an \"integrative\" model, incorporating forensically sound practices into evaluations conducted in a clinical setting. The goals of this manuscript are to (a) provide a rationale for conducting child sexual abuse extended evaluations in a clinical setting, (b) delineate the purposes of such evaluations, (c) differentiate this \"integrative\" model from the forensic-clinical dichotomy framework discussed by Kuehnle (1996), and (d) briefly describe the format, which can be refined by future practice and research.","Flood risks are managed differently across Europe. While a number of research studies aim to understand these differences, they tend to pay little attention to the social constructionist aspects of flood risk governance, i.e. the meaning that societies give to flood risk and governance. This paper aims to address this gap by understanding differences in flood risk management approaches (FRMA) from a discursive-institutional perspective. Based on this perspective, an analytical framework was developed to systematically analyse and compare discourses pertaining to flood risk and its governance in six European member states (England (the United Kingdom), Flanders (Belgium), France, the Netherlands, Poland and Sweden). Correspondingly, this paper demonstrates how the hegemonic discursive-institutional patterns of flood risk governance differ between the six European countries. These differences may influence the capability of countries to learn from each other, adopt new FRMAs or cooperate with each other. Moreover, the paper argues that differences in discourses partially account for the differences in FRMAs between countries, combined with other factors. Additionally, broader implications are discussed. For example, the research findings imply that some discourses tend to favour or disfavour other discourses, and that they additionally also tend to favour particular FRMAs; e.g. the flood risk discourse pertaining to high manageability of risks seems to favour a governance discourse of collectivity and central governance. The different insights imply that further research is necessary to understand the complex interaction of discourses and institutional arrangements.","Chronic obstructive pulmonary disease (COPD) ranks as the third leading cause of global illness and mortality. It is commonly triggered by exposure to respiratory irritants like cigarette smoke or biofuel pollutants. This multifaceted condition manifests through an array of symptoms and lung irregularities, characterized by chronic inflammation and reduced lung function. Present therapies primarily rely on maintenance medications to alleviate symptoms, but fall short in impeding disease advancement. COPD's diverse nature, influenced by various phenotypes, complicates diagnosis, necessitating precise molecular characterization. Omics-driven methodologies, including biomarker identification and therapeutic target exploration, offer a promising avenue for addressing COPD's complexity. This analysis underscores the critical necessity of improving molecular profiling to deepen our comprehension of COPD and identify potential therapeutic targets. Moreover, it advocates for tailoring treatment strategies to individual phenotypes. Through comprehensive exploration-based molecular characterization and the adoption of personalized methodologies, innovative treatments may emerge that are capable of altering the trajectory of COPD, instilling optimism for efficacious disease-modifying interventions."],"pubmed_title":["A compendium of multi-omics data illuminating host responses to lethal human virus infections.","The clinical-forensic dichotomy in sexual abuse evaluations: moving toward an integrative model.","Discursive junctions in flood risk governance - A comparative understanding in six European countries.","Keeping it real: The future direction of medical schools.","Cerebrospinal fluid cytotoxicity in amyotrophic lateral sclerosis and sample size.","Extended pelvic resection of iliacus muscle and femoral nerve for isolated recurrent uterine cancer.","The Current Molecular and Cellular Landscape of Chronic Obstructive Pulmonary Disease (COPD): A Review of Therapies and Efforts towards Personalized Treatment."],"pubmed_authors":["Eisfeld Amie J AJ, Anderson Lindsey N LN, Fan Shufang S, Walters Kevin B KB, Halfmann Peter J PJ, Westhoff Smith Danielle D, Thackray Larissa B LB, Tan Qing Q, Sims Amy C AC, Menachery Vineet D VD, Schäfer Alexandra A, Sheahan Timothy P TP, Cockrell Adam S AS, Stratton Kelly G KG, Webb-Robertson Bobbie-Jo M BM, Kyle Jennifer E JE, Burnum-Johnson Kristin E KE, Kim Young-Mo YM, Nicora Carrie D CD, Peralta Zuleyma Z, N'jai Alhaji U AU, Sahr Foday F, van Bakel Harm H, Diamond Michael S MS, Baric Ralph S RS, Metz Thomas O TO, Smith Richard D RD, Kawaoka Yoshihiro Y, Waters Katrina M KM","Tishelman Amy C AC, Meyer Susanne K SK, Haney Penny P, McLeod Sara K SK","Kaufmann Maria M, Wiering Mark M","Yakhforoshha Afsaneh A, Rafiei Hossein H","Galán L L, Matias-Guiu J A JA, Guerrero-Sola A A, Matías-Guiu J J","Chi Dennis S DS, Caceres Aileen A, Boland Patrick J PJ","Farrell Luke A LA, O'Rourke Matthew B MB, Padula Matthew P MP, Souza-Fonseca-Guimaraes Fernando F, Caramori Gaetano G, Wark Peter A B PAB, Dharmage Shymali C SC, Hansbro Phillip M PM"],"pubmed_title_synonyms":["Human, Viridae, viruses, host organism, Infestation and Infection, Animal Virus, human being, Man (Taxonomy), Homo sapiens, Viruses, Vira, Modern Man, Modern, Virus, Infection, Animal Viruses, Infestations and Infections, Infection and Infestation, Animal, Zoophaginae, Infections and Infestations., Man, human, humans"],"description_synonyms":["MGC130048, gamma sarcoglycan, SGCG_HUMAN, DMDA1, 35 kDa dystrophin-associated glycoprotein, Effects, Longterm, Longterm., SG-gamma, Metabonomic, Longterm Effect, A4, Metabonomics, Long-Term, gamma (35kDa dystrophin-associated glycoprotein), Cell, TYPE, SGCG, Long Term, Longterm Effects, LGMD2C, DAGA4, DMDA, 35kD dystrophin-associated glycoprotein, SCARMD2, Long Term Effects, 35DAG, gamma-sarcoglycan, Calu-3, sarcoglycan, Long-Term Effect, Metabolomic, MAM, gamma-SG, SCG3, Effect, Long-Term Effects"],"pubmed_abstract_synonyms":["Viridae, MGC130048, host organism, deceased, Ribonucleic, Bru, Raw, Laboratory, Lipidomic, Mus domesticus, Metabonomic, Infestations and Infections, A4, Virus Infection, Metabonomics, Cardiac Death, End-Of-Life, House Mouse, Virus Disease, Long Term, Techniques, Influenza Virus, diseases, Method, responsivity, Virus, Virus Infections, diseases and disorders, Analysis, Effect, Non Polyadenylated, placement, RNA Gene Products, Mass Spectrum Analysis, Svc, gamma sarcoglycan, Immune Processes, human disease, Immune Responses, Man (Taxonomy), Viral Diseases, reference sample, Analyses, Torovirinae, End Of Life, Swiss Mice, procedures, Filovirus, Immune, Methodological Studies, Vira, gamma-sarcoglycan, Homo sapiens disease, Infections and Infestations, house mouse, Long-Term Effects, close to, dysfunction., Flavivirus (arbovirus group B), Viral, Process, ribose nucleic acid, Modern, mouse, ribonucleic acids, SG-gamma, Coronavirinae, Longterm Effect, infections, Procedure, not genetically inherited, Spectrum Analysis, Spectroscopy, Influenza Viruses, Ribonukleinsaeure, Diseases, Metatags, pentosenucleic acids, Near-Death Experience, sarcoglycan, Bafinivirus, Ribonucleic acids, relational spatial quality, Orthomyxoviruses, White bream virus, Mus musculus, Acid, Determination of Death, Bafiniviruses, Viral Infections, mice, Viral Disease, Swiss Mouse, Spectrometry, Infection and Infestation, Methodological, gamma (35kDa dystrophin-associated glycoprotein), Methodological Study, human, domesticus, disease, Lipidome, DMDA, 35kD dystrophin-associated glycoprotein, microarray, Animal Viruses, Mouse, Interferon, location, humans, other disease, Orthomyxovirus, human being, SGCG_HUMAN, Procedures, Effects, Peptidomics, Myxovirus, Spectrum Analyses, TYPE, Human, DAGA4, Cardiac, Homo sapiens, House, 35DAG, Studies, Gene Products, Mass, disease or disorder, Mus musculus domesticus, Del(8)44H, Animal, Metabolomic, MAM, gamma-SG, Mice, SCG3, Man, Technique, Mass Spectroscopy, reactivity, Animal Virus, Myxoviruses, Viruses, Infections, Longterm, Swiss, Long-Term, clinical infection, non-neoplastic, Non-Polyadenylated RNA, Study, Infestation and Infection, Immune Response, disorder, Long-Term Effect, Immune Process, Metatag, Controlled, Viral Infection, RNA, Controlling, Disease, 35 kDa dystrophin-associated glycoprotein, disorders, Lipidomes, RNS, medical condition, Cell, SGCG, LGMD2C, near to, viruses, MS, Mus, yeast nucleic acid, Long Term Effects, post-mortem, Infection, condition, techniques, Zoophaginae, Death, Mass Spectrum Analyses, ribonucleic acid, Mass Spectrum, death, Col4a-1, DMDA1, Non Polyadenylated RNA, Non-Polyadenylated, House Mice, Ribonucleic Acid, pathophysiology, Longterm Effects, Laboratory Mice, approaches, White bream viruses, Modern Man, vicinity of, SCARMD2, Response, Filoviruses, response, Laboratory Mouse, Severe, methodology"],"name_synonyms":["Viridae, viruses, Animal Virus, Viruses, Metabolic, Vira, Metabolomes, Profile, Virus, Calu-3, Animal Viruses, Animal, Animal., Profiles, Zoophaginae, Metabolic Profile, Metabolic Profiles"],"citation_count":["0"],"additional_accession":[]},"is_claimable":true,"name":"Calu-3 cell metabolome response to H1N1 virus","description":"Metabolomics data from Calu-3 cells; Treated with wild-type and mutant H7N9 and mockulum; Time points 1, 2, 4 & 7 days; 5 biological replicates","dates":{"publication":"Wed May 04 12:12:00 BST 2016"},"accession":"MSV000079704","cross_references":{"pubmed":["38565538"]}}