Last updated on 2023-01-30T00:09:57+00:00 by LN Anderson Ebola Virus Experiment EIHH001 This experiment evaluated Immortalized Human Hepatocyte ( IHH ) cell line host response to wild-type Ebola viruses Zaire Ebola (ZEBOV '76) and Reston Ebola (REBOV '08) viral infection. Processed Transcriptome...
Last updated on 2023-01-30T00:09:57+00:00 by LN Anderson Ebola Virus Experiment EIHH002 This experiment evaluated Immortalized Human Hepatocyte ( IHH ) cell line host response to response to genetically-reconstructed Zaire Ebola virus infection. Processed Transcriptome Data Unavailable
MERS-CoV Experiment MDC001 Processed Omics Data Unavailable This experiment evaluated primary human dendritic cells infected with a wild type MERS-CoV (icMERS) virus. Related Experimental Data BioProject: PRJNA315103 GEO: GSE79172 (mRNA transcriptome response) Acknowledgment of Federal Funding The...
Influenza A Experiment IM104 Processed Omics Data Unavailable This Influenza experiment evaluated mouse lung expression after etoposide treatment and infection with a pandemic H1N1 influenza strain. Related Experimental Data BioProject: PRJNA382278 GEO: GSE97555 (mRNA transcriptome response)...
Christine H Chang, William C Nelson, Abby Jerger, Aaron T Wright, Robert G Egbert, Jason E McDermott, Snekmer: a scalable pipeline for protein sequence fingerprinting based on amino acid recoding, Bioinformatics Advances , Volume 3, Issue 1, 2023, vbad005, https://doi.org/10.1093/bioadv/vbad005...
Metabolite exchange between plant roots and their associated rhizosphere microbiomes underpins plant growth promotion by microbes. Sorghum bicolor is a cereal crop that feeds animals and humans and is used for bioethanol production. Its root tips exude large amounts of a lipophilic benzoquinone...
A major challenge in biotechnology and biomanufacturing is the identification of a set of biomarkers for perturbations and metabolites of interest. Here, we develop a data-driven, transcriptome-wide approach to rank perturbation-inducible genes from time-series RNA sequencing data for the discovery...
Last updated on 2023-02-23T19:37:46+00:00 by LN Anderson Snekmer: A scalable pipeline for protein sequence fingerprinting using amino acid recoding (AAR) Snekmer is a software package designed to reduce the representation of protein sequences by combining amino acid reduction (AAR) with the kmer...
Last updated on 2024-03-21T18:47:20+00:00 by LN Anderson MPLEx Method Protocol for Integrative Single-Sample Processing for Subsequent Proteomic, Metabolomic, and Lipidomic Analyses Method Source Contributions LN Anderson , Data Curation The Metabolite, Protein and Lipid Extraction (MPLEx) method...
Last updated on 2024-02-11T22:41:43+00:00 by LN Anderson Influenza A Virus Experiment ICL105 Metadata The purpose of this experiment was to evaluate the host epigenetic response to Influenza A virus (subtype H5N1) infection. Sample data was obtained from human lung adenocarcinoma cells (Calu-3) and...
Last updated on 2024-02-11T22:41:43+00:00 by LN Anderson Influenza A Virus Experiment ICL106 Metadata The purpose of this experiment was to evaluate the human host epigenetic response to Influenza A virus (subtype H5N1) infection. Samples were obtained from human lung adenocarcinoma cell line (Calu...
Last updated on 2024-02-11T22:41:43+00:00 by LN Anderson MERS-CoV Experiment MCL005 Metadata The purpose of this experiment was to evaluate the human host epigenetic response to MERS-CoV virus infection. Samples were obtained from human lung adenocarcinoma cells (Calu-3) and processed for...
Last updated on 2024-02-11T22:41:43+00:00 by LN Anderson MERS-CoV Experiment MCL004 Metadata The purpose of this experiment was to evaluate the host response to MERS-CoV virus infection. Sample data was obtained from human lung adenocarcinoma cells (Calu-3) and processed for genome binding/occupancy...