ArticleScientific data2014
A comprehensive collection of systems biology data characterizing the host response to viral infection.
Abstract readDataset
In one paragraph
Article in Scientific data, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers, 2 of them syntheses that pooled it.
0numbers the graph read from it
0cells of the map it votes in
30citing papers in PubMed, 2 pooled it
–field-weighted citation impact
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
30 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Meta-Analysis of Two Human RNA-seq Datasets to Determine Periodontitis Diagnostic Biomarkers and Drug Target Candidates.International journal of molecular sciences · 2022Pooled it
- Searching for a Lifeline: Transcriptome Profiling Studies of Influenza Susceptibility and Resistance.Journal of innate immunity · 2017Pooled it
- A compendium of multi-omics data illuminating host responses to lethal human virus infections.Scientific data · 2024Article
- COVID-19: A novel holistic systems biology approach to predict its molecular mechanisms (in vitro) and repurpose drugs.Daru : journal of Faculty of Pharmacy, Tehran University of Medical Sciences · 2023Article
- Deciphering molecular mechanisms of SARS-CoV-2 pathogenesis and drug repurposing through GRN motifs: a comprehensive systems biology study.3 Biotech · 2023Article
- Protective Efficacy of a Mucosal Influenza Vaccine Formulation Based on the Recombinant Nucleoprotein Co-Administered with a TLR2/6 Agonist BPPcysMPEG.Pharmaceutics · 2023Article
- Epigenetic perspectives of COVID-19: Virus infection to disease progression and therapeutic control.Biochimica et biophysica acta. Molecular basis of disease · 2022Article
- Host genetic diversity and genetic variations of SARS-CoV-2 in COVID-19 pathogenesis and the effectiveness of vaccination.International immunopharmacology · 2022Review
- Significance of Immune Status of SARS-CoV-2 Infected Patients in Determining the Efficacy of Therapeutic Interventions.Journal of personalized medicine · 2022Review
- Therapeutic targets and interventional strategies in COVID-19: mechanisms and clinical studies.Signal transduction and targeted therapy · 2021Review
- The epigenetic implication in coronavirus infection and therapy.Clinical epigenetics · 2020Review
- Digital microbiology.Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases · 2020Review
- Consensus transcriptional regulatory networks of coronavirus-infected human cells.Scientific data · 2020Article
- Consensus transcriptional regulatory networks of coronavirus-infected human cells.bioRxiv : the preprint server for biology · 2020Article
- Thoughts on the alveolar phase of COVID-19.American journal of physiology. Lung cellular and molecular physiology · 2020Article
- Unique epidemiological and clinical features of the emerging 2019 novel coronavirus pneumonia (COVID-19) implicate special control measures.Journal of medical virology · 2020Review
- Comparative Transcriptomic Analysis of Rhinovirus and Influenza Virus Infection.Frontiers in microbiology · 2020Article
- A Bibliometric Analysis of Corona Pandemic in Social Sciences: A Review of Influential Aspects and Conceptual Structure.IEEE access : practical innovations, open solutions · 2020Article
- Unified feature association networks through integration of transcriptomic and proteomic data.PLoS computational biology · 2019Article
- Analysis of clinical characteristics of macrophage capping protein (CAPG) gene expressed in glioma based on TCGA data and clinical experiments.Oncology letters · 2019Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
68 authors.
Brian D AevermannJ. Craig Venter Institute , La Jolla, CA 92037, USA.
Brett E PickettJ. Craig Venter Institute , La Jolla, CA 92037, USA.
Sanjeev KumarNorthrop Grumman Information Systems, Health IT , Rockville, MD 20850, USA.
Edward B KlemNorthrop Grumman Information Systems, Health IT , Rockville, MD 20850, USA.
Sudhakar AgnihothramDepartment of Epidemiology, University of North Carolina at Chapel Hill , Chapel Hill, NC 27599-7400, USA.
Peter S AskovichSeattle Biomedical Research Institute , Seattle, WA 98109, USA.
Armand BankheadOregon Clinical & Translational Research Institute , Portland, Oregon 97239-3098, USA ; Division of Bioinformatics and Computational Biology, Department of Medical Informatics and Clinical Epidemiology, Oregon Health Sciences University , Portland, Oregon 97239-3098, USA.
Meagen BollesDepartment of Microbiology and Immunology, University of North Carolina at Chapel Hill , Chapel Hill, North Carolina 27599-7290, USA.
Victoria CarterDepartment of Microbiology, University of Washington , Seattle, WA 98195, USA.
Jean ChangDepartment of Microbiology, University of Washington , Seattle, WA 98195, USA.
Therese R W ClaussBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Pradyot DashDepartment of Immunology, St. Jude Children's Research Hospital , Memphis, TN 38105-3678, USA.
Alan H DiercksSeattle Biomedical Research Institute , Seattle, WA 98109, USA.
Amie J EisfeldSchool of Veterinary Medicine, Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison , Madison, WI 53706, USA.
Amy EllisSchool of Veterinary Medicine, Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison , Madison, WI 53706, USA.
Shufang FanSchool of Veterinary Medicine, Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison , Madison, WI 53706, USA.
Martin T FerrisDepartment of Genetics, University of North Carolina at Chapel Hill , Chapel Hill, NC 27599-7264, USA.
Lisa E GralinskiDepartment of Microbiology and Immunology, University of North Carolina at Chapel Hill , Chapel Hill, North Carolina 27599-7290, USA.
Richard R GreenDepartment of Microbiology, University of Washington , Seattle, WA 98195, USA.
Marina A GritsenkoBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Masato HattaSchool of Veterinary Medicine, Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison , Madison, WI 53706, USA.
Robert A HeegelBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Jon M JacobsBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Sophia JengOregon Clinical & Translational Research Institute , Portland, Oregon 97239-3098, USA.
Laurence JossetDepartment of Microbiology, University of Washington , Seattle, WA 98195, USA.
Shari M KaiserSeattle Biomedical Research Institute , Seattle, WA 98109, USA.
Sara KellyDepartment of Microbiology, University of Washington , Seattle, WA 98195, USA.
G Lynn LawDepartment of Microbiology, University of Washington , Seattle, WA 98195, USA.
Chengjun LiDivision of Animal influenza, Harbin Veterinary Research Institute, Chinese Academy of Agricultural Sciences , Harbin, Heilongjiang Province 150001, China.
Jiangning LiSeattle Biomedical Research Institute , Seattle, WA 98109, USA.
Casey LongDepartment of Epidemiology, University of North Carolina at Chapel Hill , Chapel Hill, NC 27599-7400, USA.
Maria L LunaBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Melissa MatzkeBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Jason McDermottBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Vineet MenacheryDepartment of Epidemiology, University of North Carolina at Chapel Hill , Chapel Hill, NC 27599-7400, USA.
Thomas O MetzBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Hugh MitchellBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Matthew E MonroeBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Garnet NavarroSeattle Biomedical Research Institute , Seattle, WA 98109, USA.
Gabriele NeumannSchool of Veterinary Medicine, Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison , Madison, WI 53706, USA.
Rebecca L PodyminoginSeattle Biomedical Research Institute , Seattle, WA 98109, USA.
Samuel O PurvineEnvironmental Molecular Sciences Laboratory, Pacific Northwest National Laboratory , Richland, WA 99354, USA.
Carrie M RosenbergerSeattle Biomedical Research Institute , Seattle, WA 98109, USA.
Catherine J SandersDepartment of Immunology, St. Jude Children's Research Hospital , Memphis, TN 38105-3678, USA.
Athena A SchepmoesBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Anil K ShuklaBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Amy SimsDepartment of Epidemiology, University of North Carolina at Chapel Hill , Chapel Hill, NC 27599-7400, USA.
Pavel SovaDepartment of Microbiology, University of Washington , Seattle, WA 98195, USA.
Vincent C TamSeattle Biomedical Research Institute , Seattle, WA 98109, USA.
Nicolas TchitchekDepartment of Microbiology, University of Washington , Seattle, WA 98195, USA.
Paul G ThomasDepartment of Immunology, St. Jude Children's Research Hospital , Memphis, TN 38105-3678, USA.
Susan C TiltonBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Allison ToturaDepartment of Microbiology and Immunology, University of North Carolina at Chapel Hill , Chapel Hill, North Carolina 27599-7290, USA.
Jing WangBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Bobbie-Jo Webb-RobertsonBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Ji WenBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Jeffrey M WeissDepartment of Microbiology, University of Washington , Seattle, WA 98195, USA.
Feng YangBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Boyd YountDepartment of Epidemiology, University of North Carolina at Chapel Hill , Chapel Hill, NC 27599-7400, USA.
Qibin ZhangBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Shannon McWeeneyOregon Clinical & Translational Research Institute , Portland, Oregon 97239-3098, USA ; Division of Bioinformatics and Computational Biology, Department of Medical Informatics and Clinical Epidemiology, Oregon Health Sciences University , Portland, Oregon 97239-3098, USA.
Richard D SmithBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Katrina M WatersBiological Sciences Division, Pacific Northwest National Laboratory , Richland, WA 99352, USA.
Yoshihiro KawaokaSchool of Veterinary Medicine, Department of Pathobiological Sciences, Influenza Research Institute, University of Wisconsin-Madison , Madison, WI 53706, USA.
Ralph BaricDepartment of Epidemiology, University of North Carolina at Chapel Hill , Chapel Hill, NC 27599-7400, USA ; Department of Microbiology and Immunology, University of North Carolina at Chapel Hill , Chapel Hill, North Carolina 27599-7290, USA.
Alan AderemSeattle Biomedical Research Institute , Seattle, WA 98109, USA.
Michael G KatzeDepartment of Microbiology, University of Washington , Seattle, WA 98195, USA ; Washington National Primate Research Center, University of Washington , Seattle, WA 98195, USA.
Richard H ScheuermannJ. Craig Venter Institute , La Jolla, CA 92037, USA ; Department of Pathology, University of California , San Diego, CA 92093, USA.
Funding
OREGON CLINICAL AND TRANSLATIONAL SCIENCE INSTITUTEUL1RR024140 · NCRR · OREGON HEALTH & SCIENCE UNIVERSITY · PI ORWOLL, ERIC S. · 2006 to 2011
$61.1MEquipment Supplement Request for a Research Resource for Ultra-sensitive High Throughput ProteomicsP41GM103493 · NIGMS · BATTELLE PACIFIC NORTHWEST LABORATORIES · PI SMITH, RICHARD D · 2012 to 2022
$22.6MNCRR NIH HHS 5UL1RR024140NCRR NIH HHS UL1 RR024140NIAID NIH HHS HHSN272200800058CNIAID NIH HHS HHSN272200800060CNIAID NIH HHS N01 AI040041NIGMS NIH HHS 8 P41 GM103493-11NIGMS NIH HHS P41 GM103493
Abstract
The Systems Biology for Infectious Diseases Research program was established by the U.S. National Institute of Allergy and Infectious Diseases to investigate host-pathogen interactions at a systems level. This program generated 47 transcriptomic and proteomic datasets from 30 studies that investigate in vivo and in vitro host responses to viral infections. Human pathogens in the Orthomyxoviridae and Coronaviridae families, especially pandemic H1N1 and avian H5N1 influenza A viruses and severe acute respiratory syndrome coronavirus (SARS-CoV), were investigated. Study validation was demonstrated via experimental quality control measures and meta-analysis of independent experiments performed under similar conditions. Primary assay results are archived at the GEO and PeptideAtlas public repositories, while processed statistical results together with standardized metadata are publically available at the Influenza Research Database (www.fludb.org) and the Virus Pathogen Resource (www.viprbrc.org). By comparing data from mutant versus wild-type virus and host strains, RNA versus protein differential expression, and infection with genetically similar strains, these data can be used to further investigate genetic and physiological determinants of host responses to viral infection.
Indexed as
Host-Pathogen InteractionsInfluenza A virusAnimalsDatabases, FactualData CollectionHumansInfluenza, HumanMiceOrthomyxoviridae InfectionsSystems Biology
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.