Knock-Out:Article Title: Spatial and temporal transcriptomics of Schistosoma japonicum-induced hepatic granuloma formation reveals novel roles for neutrophils.
Article Snippet: .. E-mail: geoffrey.gobert@qimr. edu.au Abbreviations: ACTA2 actin 2, smooth muscle, COL1A1 collagen, type-1, 1, CTGF connective tissue growth factor, DAVID Database for Annotation, Visualization, and Integrated Discovery, ELA2 elastase 2, neutrophil, HSC hepatic stellate cell, KEGG Kyoto Encyclopedia of Genes and Genomes, KO knockout, LMM laser microdissection microscopy, LTF lactotransferrin, MMP matrix metalloproteinase, NCBI National Center for Biotechnology Information, NCF1 neutrophil cytosolic factor 1, NCF4 neutrophil cytosolic factor 4, LCN2 lipocalin 2, NE neutrophil elastase, NET neutrophil extracellular trap, NGP neutrophilic granule protein, p.i. postinfection, QIMR Queensland Institute of Medical Research, S100A8/A9 S100 calcium-binding protein A8/A9, SAA3 serum amyloid A3, SLPi secretory leukocyte protease inhibitor The online version of this paper, found at www.jleukbio.org, includes supplemental information. ..
Laser Capture Microdissection:Article Title: Spatial and temporal transcriptomics of Schistosoma japonicum-induced hepatic granuloma formation reveals novel roles for neutrophils.
Article Snippet: .. E-mail: geoffrey.gobert@qimr. edu.au Abbreviations: ACTA2 actin 2, smooth muscle, COL1A1 collagen, type-1, 1, CTGF connective tissue growth factor, DAVID Database for Annotation, Visualization, and Integrated Discovery, ELA2 elastase 2, neutrophil, HSC hepatic stellate cell, KEGG Kyoto Encyclopedia of Genes and Genomes, KO knockout, LMM laser microdissection microscopy, LTF lactotransferrin, MMP matrix metalloproteinase, NCBI National Center for Biotechnology Information, NCF1 neutrophil cytosolic factor 1, NCF4 neutrophil cytosolic factor 4, LCN2 lipocalin 2, NE neutrophil elastase, NET neutrophil extracellular trap, NGP neutrophilic granule protein, p.i. postinfection, QIMR Queensland Institute of Medical Research, S100A8/A9 S100 calcium-binding protein A8/A9, SAA3 serum amyloid A3, SLPi secretory leukocyte protease inhibitor The online version of this paper, found at www.jleukbio.org, includes supplemental information. ..
Microscopy:Article Title: Spatial and temporal transcriptomics of Schistosoma japonicum-induced hepatic granuloma formation reveals novel roles for neutrophils.
Article Snippet: .. E-mail: geoffrey.gobert@qimr. edu.au Abbreviations: ACTA2 actin 2, smooth muscle, COL1A1 collagen, type-1, 1, CTGF connective tissue growth factor, DAVID Database for Annotation, Visualization, and Integrated Discovery, ELA2 elastase 2, neutrophil, HSC hepatic stellate cell, KEGG Kyoto Encyclopedia of Genes and Genomes, KO knockout, LMM laser microdissection microscopy, LTF lactotransferrin, MMP matrix metalloproteinase, NCBI National Center for Biotechnology Information, NCF1 neutrophil cytosolic factor 1, NCF4 neutrophil cytosolic factor 4, LCN2 lipocalin 2, NE neutrophil elastase, NET neutrophil extracellular trap, NGP neutrophilic granule protein, p.i. postinfection, QIMR Queensland Institute of Medical Research, S100A8/A9 S100 calcium-binding protein A8/A9, SAA3 serum amyloid A3, SLPi secretory leukocyte protease inhibitor The online version of this paper, found at www.jleukbio.org, includes supplemental information. ..
Protease Inhibitor:Article Title: Spatial and temporal transcriptomics of Schistosoma japonicum-induced hepatic granuloma formation reveals novel roles for neutrophils.
Article Snippet: .. E-mail: geoffrey.gobert@qimr. edu.au Abbreviations: ACTA2 actin 2, smooth muscle, COL1A1 collagen, type-1, 1, CTGF connective tissue growth factor, DAVID Database for Annotation, Visualization, and Integrated Discovery, ELA2 elastase 2, neutrophil, HSC hepatic stellate cell, KEGG Kyoto Encyclopedia of Genes and Genomes, KO knockout, LMM laser microdissection microscopy, LTF lactotransferrin, MMP matrix metalloproteinase, NCBI National Center for Biotechnology Information, NCF1 neutrophil cytosolic factor 1, NCF4 neutrophil cytosolic factor 4, LCN2 lipocalin 2, NE neutrophil elastase, NET neutrophil extracellular trap, NGP neutrophilic granule protein, p.i. postinfection, QIMR Queensland Institute of Medical Research, S100A8/A9 S100 calcium-binding protein A8/A9, SAA3 serum amyloid A3, SLPi secretory leukocyte protease inhibitor The online version of this paper, found at www.jleukbio.org, includes supplemental information. ..
other:Article Title: Bioinformatics analysis of gene expression profiling for identification of potential key genes among ischemic stroke
Article Snippet: Abbreviations: (IL-1b) = interleukin-1b, APC = activated protein C, ATF3 = activating transcription factor 3, BCL2 = B-cell leukemia/lymphoma 2, BDNF = brain-derived neurotrophic factor, COX-2 = cyclooxygenase-2, CREB = responsive elementbinding, CTMP = carboxyl-terminal modulator protein, DAVID = Database for Annotation, Visualization, and Integrated Discovery, DEGs = differentially expressed genes, EGR1 = early growth response protein 1, GEO = Gene Expression Omnibus, HSP70 = heat shock protein 70, IS = ischemic stroke, JNK = Jun N-terminal kinase, KEGG = Kyoto Encyclopedia of Genes and Genomes, MCA = middle cerebral artery, mTOR = mechanistic target of rapamycin, NCBI = National Center of Biotechnology Information, NF-kB = nuclear factor-kappa B, OGD = oxygen and glucose deprivation, PBMCs = peripheral blood mononuclear cells, PPI = protein–protein interaction, STRING = Search Tool for the Retrieval of Interacting Genes, ZFHX3 = Zinc Finger Homeobox 3.
Article Title: GeneSetCart: assembling, augmenting, combining, visualizing, and analyzing gene sets
Article Snippet: 503 504 List of abbreviations 505 LLM - large language model 506 SNP - single-nucleotide polymorphism 507 DAVID - database for annotation, visualization, and integrated discovery 508 GSEA – gene set enrichment analysis 509 NER - named entity recognition 510 GEO - gene expression omnibus 511 PMC – PubMed central 512 ARCHS4 – All RNA-seq and ChIP-seq sample signature search 513 NCBI – national center for biotechnology information 514 HGNC – HUGO gene nomenclature committee 515 HUGO – human genome organization 516 PPIs - protein-protein interactions 517 API – application programming interface 518 GeneRIF – gene reference into function 519 14 G2N – genes to networks 520 UMAP - uniform manifold projection 521 D3 - data-driven documents 522 JSX - JavaScript XML 523 XML - extensible markup language 524 TF-IDF - term frequency inverse document frequency 525 PNG - portable network graphics 526 SVG - scalable vector graphics 527 URL - uniform resource locator 528 ChEA3 - ChIP-X enrichment analysis 3 529 KEA3 - kinase enrichment analysis 3 530 L2S2 - LINCS L1000 signature search 531 LINCS – library of integrated network-based cellular signatures 532 CF – common fund 533 CFDE - common fund data ecosystem 534 CFDE-GSE - common fund data ecosystem gene set enrichment 535 PWB - playbook workflow builder 536 TFs - transcription factors 537 PFOCRummage – pathway figure OCR rummage 538 OCR – optical character recognition 539 GO – gene ontology 540 GWAS – genome-wide association study 541 ORM – object relational mapping 542 KOMP2 - knockout mouse phenotyping program 2 543 GTEx - genotype-tissue expression 544 HuBMAP - human bio-molecular atlas program 545 MotrPAC - molecular transducers of physical activity consortium 546 GFAP - glial fibrillary acidic protein 547 AxD – Alexander disease 548 RF - Rosenthal fibers 549 WT - wild type 550 scRNA – single cell RNA 551 CROP-seq - CRISPR droplet sequencing 552 CRISPR - clustered regularly interspaced short palindromic repeats 553 NIH – national institutes of health 554 555 556 557 15 Figure Legends 558 559 Figure 1.
|
