surescan d× microarray scanner  (Agilent technologies)

Journal: Medical Physics

Article Title: Evaluation of the impact of cardiac implantable electronic devices on cine MRI for real‐time adaptive cardiac radioablation on a 1.5 T MR‐linac

doi: 10.1002/mp.17438

Figure Lengend Snippet: Cine acquisitions from a single healthy volunteer (V5) acquired with and without an ICD. Acquired frames in end‐diastole are shown. The ICD (yellow arrows) was placed on the clavicle within a protective envelope. The green arrows indicate the ICD‐induced banding artifacts in the left ventricle. The annotated myocardial landmarks were used for cardiorespiratory motion estimation using MT of the first observer and GDC deformable image registration. ICD, implantable cardioverter–defibrillator; GDC, generalized divergence‐curl; MT, manual tracking.

Article Snippet: The ICD‐induced effects on the acquired cine MRI images were investigated by placing an MR‐conditional ICD (Claria MRI, CRT‐D SureScan, Model DTMA2D1, Medtronic Inc., MN, USA) on the clavicle within a protective envelope of water‐equivalent gel.

Techniques:

Journal: Medical Physics

Article Title: Evaluation of the impact of cardiac implantable electronic devices on cine MRI for real‐time adaptive cardiac radioablation on a 1.5 T MR‐linac

doi: 10.1002/mp.17438

Figure Lengend Snippet: Left: absolute point‐wise errors between the annotated myocardial landmarks by two observers. A total of 1.7% and 0.7% of the datapoints were considered outliers with and without ICD, respectively. Right: absolute point‐wise errors between the manually annotated myocardial landmark by the first observer versus the estimated myocardial landmarks using the GDC deformable image registration algorithm. A total of 0.8% and 2.7% of the datapoints were considered outliers with and without ICD, respectively. Data points were considered outliers when they exceed 1.5 times the inter‐quartile range. ICD, implantable cardioverter– defibrillator; GDC, generalized divergence‐curl.

Article Snippet: The ICD‐induced effects on the acquired cine MRI images were investigated by placing an MR‐conditional ICD (Claria MRI, CRT‐D SureScan, Model DTMA2D1, Medtronic Inc., MN, USA) on the clavicle within a protective envelope of water‐equivalent gel.

Techniques:

Journal: Medical Physics

Article Title: Evaluation of the impact of cardiac implantable electronic devices on cine MRI for real‐time adaptive cardiac radioablation on a 1.5 T MR‐linac

doi: 10.1002/mp.17438

Figure Lengend Snippet: An overview of selected cardiorespiratory motion traces at varying positions in the left ventricle of volunteer 5 (with and without ICD). The number in the top right corner of each graph corresponds to the LV quadrant in the healthy volunteer. The motion traces of the VT patient were estimated in the GTV center. The motion traces were estimated using GDC and GP. ICD, implantable cardioverter– defibrillator; GDC, generalized divergence‐curl; GP, Gaussian processes; GTV, gross target volume; LV, left ventricle; VT, ventricular tachycardia.

Article Snippet: The ICD‐induced effects on the acquired cine MRI images were investigated by placing an MR‐conditional ICD (Claria MRI, CRT‐D SureScan, Model DTMA2D1, Medtronic Inc., MN, USA) on the clavicle within a protective envelope of water‐equivalent gel.

Techniques:

Journal: Viruses

Article Title: Transcriptomic Analysis of MDBK Cells Infected with Cytopathic and Non-Cytopathic Strains of Bovine Viral Diarrhea Virus (BVDV)

doi: 10.3390/v14061276

Figure Lengend Snippet: Sequences of primers used in the RT-qPCR to confirm the results of the microarray analysis. * Gene used as reference.

Article Snippet: After washing, slides were scanned using a SureScan D× Microarray Scanner (Agilent Technologies, Santa Clara, CA, USA).

Techniques: Microarray, Sequencing

Journal: Frontiers in Immunology

Article Title: Gill and Liver Transcript Expression Changes Associated With Gill Damage in Atlantic Salmon ( Salmo salar )

doi: 10.3389/fimmu.2022.806484

Figure Lengend Snippet: Overview of the field trial and the microarray experimental design. (A) Abiotic and biotic stressors potentially contributing to gill damage of farmed Atlantic salmon. (B) Common reference design microarray experiment. Arrows represent microarrays with the numbers of biological replicates shown next to the arrows. The base of the arrow shows the Cy3-labeled sample (i.e., common reference pool), and the arrowhead shows the Cy5-labeled sample (i.e., experimental sample). This figure was constructed using BioRender ( https://biorender.com/ ).

Article Snippet: Each microarray slide was scanned at 5 µm resolution using a SureScan D Microarray Scanner (G2600D, Agilent Technologies) using Agilent Scan Control Software (v9.1.11.7, Agilent Technologies) by applying a built-in protocol (Agilent_HD_GX_2color).

Techniques: Microarray, Labeling, Construct

Journal: Frontiers in Immunology

Article Title: Gill and Liver Transcript Expression Changes Associated With Gill Damage in Atlantic Salmon ( Salmo salar )

doi: 10.3389/fimmu.2022.806484

Figure Lengend Snippet: Primers used in the gill either in the preliminary qPCR or the microarray validation experiment, including comparison between microarray Rank Products and qPCR fold-change results for Atlantic salmon transcripts responsive in moderately damaged gill.

Article Snippet: Each microarray slide was scanned at 5 µm resolution using a SureScan D Microarray Scanner (G2600D, Agilent Technologies) using Agilent Scan Control Software (v9.1.11.7, Agilent Technologies) by applying a built-in protocol (Agilent_HD_GX_2color).

Techniques: Microarray, Sequencing, Amplification, Binding Assay

Journal: Frontiers in Immunology

Article Title: Gill and Liver Transcript Expression Changes Associated With Gill Damage in Atlantic Salmon ( Salmo salar )

doi: 10.3389/fimmu.2022.806484

Figure Lengend Snippet: Bar plot of gill transcripts related to gill remodeling and wound healing (panel A–U ). On the lower right side, Panel (V) shows a scatterplot of log 2 fold-change from Rank Products microarray data vs . qPCR log 2 fold-change. Different letters indicate a significant difference between groups using one-way ANOVA. Asterisk (*) shows significance (p< 0.05) between GS0 and GS2 using t-test. Gene symbols followed by a dagger (†) are associated with p-values between 0.05 and 0.10 using either t-test (GS0 vs GS2; i.e., mmp19 ) or one-way ANOVA (i.e., tnnt2 ).

Article Snippet: Each microarray slide was scanned at 5 µm resolution using a SureScan D Microarray Scanner (G2600D, Agilent Technologies) using Agilent Scan Control Software (v9.1.11.7, Agilent Technologies) by applying a built-in protocol (Agilent_HD_GX_2color).

Techniques: Microarray

Journal: Frontiers in Immunology

Article Title: Gill and Liver Transcript Expression Changes Associated With Gill Damage in Atlantic Salmon ( Salmo salar )

doi: 10.3389/fimmu.2022.806484

Figure Lengend Snippet: Results of principal component analysis (PCA) plotted on two dimensions (Panel A ) for the gill differentially expressed microarray log 2 ratio (Cy5/Cy3). PC1 explained 50.72%, PC2 explained 25.49%, and PC3 explained 7.46% of the variability. Panel (B) Bar-plot of the percentage of the explained variance for each PC (dimension). Panel (C) PCA plotted on three dimensions for the gill differentially expressed microarray log 2 ratio (Cy5/Cy3) data.

Article Snippet: Each microarray slide was scanned at 5 µm resolution using a SureScan D Microarray Scanner (G2600D, Agilent Technologies) using Agilent Scan Control Software (v9.1.11.7, Agilent Technologies) by applying a built-in protocol (Agilent_HD_GX_2color).

Techniques: Microarray