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Protocols

ag.db specifications

Information


Unique identifier OMICS_22611
Name ag.db
Restrictions to use None
Community driven No
Data access File download
User data submission Not allowed
Version 3.2.3
Requirements
AnnotationDbi, methods, RUnit, annotate, DBI, R(>=2.7.0), AnnotationDbi(>=1.34.3), org.At.tair.db(>=3.3.0)
Maintained Yes

Subtools


  • ag_dbconn
  • agACCNUM
  • agARACYCENZYME
  • agCHR
  • agCHRLENGTHS
  • agCHRLOC
  • agENZYME
  • agENZYME2PROBE
  • agGENENAME
  • agGO
  • agGO2ALLPROBES
  • agGO2PROBE
  • agMAPCOUNTS
  • agORGANISM
  • agPATH
  • agPATH2PROBE
  • agPMID
  • agPMID2PROBE
  • agSYMBOL

ag.db citations

 (239)
library_books

Characterization of recent and minimally passaged Brazilian dengue viruses inducing robust infection in rhesus macaques

2018
PLoS One
PMCID: 5919018
PMID: 29694440
DOI: 10.1371/journal.pone.0196311

[…] was extracted from 200 μL of either cell culture supernatant or monkey sera using the High Pure Viral Nucleic Acid kit (Roche). DENV genome equivalents were quantitated by real-time RT-PCR using the AgPath-ID One-Step RT-PCR kit (Ambion). Each RT-PCR reaction mixture contained 2.5 μl of RNA, 1.67 μL of Detection Enhancer, 2X RT-PCR Buffer, 25X RT-PCR Enzyme Mix (all from the kit), 20 U of RNAsin […]

library_books

Evidence of exposure of domestic pigs to Highly Pathogenic Avian Influenza H5N1 in Nigeria

2018
Sci Rep
PMCID: 5897404
PMID: 29651056
DOI: 10.1038/s41598-018-24371-6

[…] . RT real time PCR (RT-qPCR) targeting parts of the nucleoprotein gene were additionally done at FLI, Germany as described by Fereidouni et al.. Positive samples were thereafter analysed using Ambion-AgPath ID One Step RT-PCR Kit and RT-qPCR protocols for a swine influenza virus (SIV) hemagglutinin (HA) 4plex assay targeting H1pdm, H1avian (H1av), H1human (H1hu) and H3 and for a SIV-neuraminidase […]

library_books

Avian viral surveillance in Victoria, Australia, and detection of two novel avian herpesviruses

2018
PLoS One
PMCID: 5865735
PMID: 29570719
DOI: 10.1371/journal.pone.0194457

[…] Samples were tested for the presence of influenza A virus RNA using a TaqMan Real-Time matrix gene-specific RT-PCT assay [] within a commercial kit (AgPath-ID™ One-Step RT-PCR Kit, Ambion). RNA extracted from Influenza A/Memphis/1/1971 was used as template for positive control reactions, while sterile water was used for the negative control reacti […]

library_books

NS Segment of a 1918 Influenza A Virus Descendent Enhances Replication of H1N1pdm09 and Virus Induced Cellular Immune Response in Mammalian and Avian Systems

2018
Front Microbiol
PMCID: 5874506
PMID: 29623073
DOI: 10.3389/fmicb.2018.00526

[…] tions (Peqlab). TaqMan real-time RT-PCR (RT-qPCR) was used to quantify cytokine and ISG mRNA expression in TOCs (n = 6/time point/group). Gene specific primers and probes (Table ) were used with the “AgPath-ID One-Step RT-PCR Kit” (Applied Biosystems, Foster City, CA, United States) according to the manufacturer’s instructions. Individual samples were normalized to 28S rRNA expression. Five μl of […]

library_books

Stability of Porcine Epidemic Diarrhea Virus on Fomite Materials at Different Temperatures

2018
PMCID: 5876564
PMID: 29438310
DOI: 10.3390/vetsci5010021

[…] CTTTCAATTCACA and Reverse 2012: TATACTTGGTACACACATCCAGAGTCA. PCR amplification was quantified using a FAM labeled probe 1939: FAM-TGAGTTGATTACTGGCACGCCTAAACCAC-BHQ. The primer and probe were added to AgPath-ID™ One-Step RT-PCR reagents (Thermo Fisher Scientific, Waltham, MA, USA) along with 5 μL of extracted total RNA followed by amplification with 7500 Fast Real-Time PCR System (Thermo Fisher Sci […]

library_books

Direct serogrouping of Dichelobacter nodosus from Victorian farms using conventional multiplex polymerase chain reaction

2018
BMC Res Notes
PMCID: 5804069
PMID: 29415761
DOI: 10.1186/s13104-018-3229-5

[…] bed by Stäuble et al. []. Briefly, the qPCR program consisted of an initial denaturation step of 2 min at 50 °C, a hold of 10 min at 95 °C, followed by 40 cycles of 15 s at 95 °C, 1 min at 60 °C. The AgPath-IDTM One-Step RT-PCR Kit (Ambion, Austin, USA) was used as master mix according to manufacturer’s instructions, with final concentrations of 300 nM primers, 100 nM DnAprTM- vMGB, 250 nM DnAprTM […]

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