The largest database of trusted experimental protocols

AnalyzePro software

Manufactured by AnalyzeDirect
Sourced in United States

AnalyzePro is a software application designed for data analysis and processing. It provides a suite of tools for tasks such as data visualization, statistical analysis, and workflow management. The software is built to handle a variety of data formats and can be used across different industries and applications.

Automatically generated - may contain errors

8 protocols using AnalyzePro software

Both in prevention and reversion studies, micro-computed tomography (micro-CT) scans were performed to assess the volumes of the visceral adipose tissue (VAT) and subcutaneous adipose tissue (SAT) depots.
Four mice from each group were randomly selected and anesthetized with 5% isoflurane. Transverse micro-CT images of the abdomen from L1 to L5 were obtained by the micro-CT scanner Quantum FX µCT (Perkin-Elmer, Hopkinton, MA, USA). Voltage was set at 50 kV and current was set at 200 μA and the images were captured over a 4.5 min interval. Analysis of micro-CT images was conducted with AnalyzePro software (AnalyzeDirect, Overland Park, KS, USA). Visceral and subcutaneous adipose tissue were segmented in the sagittal plane and tissue volumes were expressed relative to body mass [31 (link)]. Experimental data from micro-CT were provided by ATeN Center—Università di Palermo.
+ Open protocol
+ Expand
Experimental MRI was performed at the Weill Cornell Medicine Citigroup Biomedical Imaging Center on a 7.0 Tesla 70/30 Bruker Biospec small animal MRI system with 450 mT/m gradient amplitude and a 4500 T/m/s slew rate. The animals were anesthetized with isoflurane in oxygen and fixed in the MRI using a nose cone and bite ring. A volume coil was used for transmission and reception. Multi-slice T2 TurboRARE with fat suppression axial and coronal images were acquired using the following parameters: slice thickness = 0.5 mm, the field of view = 40 mm × 40 mm, matrix = 192 × 192, 0.208 mm/pixel × 0.208 mm/pixel, 16 Averages. Coronal: TE –48 ms effective (16 ms with Echo Train Length of 8), TR –2786 ms, but varied if the required number of slices for anatomical coverage changed. Axial: TE –48 ms effective (16 ms with Echo Train Length of 8), TR –4024 ms, but varied if the required number of slices for anatomical coverage changed. The number of slices varied based on the size of the animal. Post-scan analysis was conducted using AnalyzePro software (AnalyzeDirect, Overland Park, KS). Volumetric measurements were obtained by defining a region of interest around the prostate or tumor.
+ Open protocol
+ Expand
Preserved vasculature in the nerve segments was quantified using a SkyScan 1276 micro CT (Bruker Corporation, Billerica, MA, USA) at 40kV voltage, 200 μA current and 10 μm resolution, as previously described12 . Three-dimensional images of the samples were reconstructed using Hierarchical InstaRecon software (NRecon, 1.7.4.2., InstaRecon, 2.0.4.0. InstaRecon) and AnalyzePro software (AnalyzeDirect, Inc.,Overland Park, KS) was used to segment blood vessels. The volume of the vasculature was expressed as a percentage of the total nerve volume (vessel%).
+ Open protocol
+ Expand
After clearing had taken place, the samples were scanned in a SkyScan 1276 micro CT (Bruker Corporation, Billerica, MA, USA) at 40 kV voltage, 200 μA current and 10 μm resolution to calculate vascular volume. Three samples were scanned at a time, taking approximately 26 minutes per scan with frame averaging set at three in order to reduce noise. Three-dimensional images of the samples were reconstructed using Hierarchical InstaRecon software (NRecon, 1.7.4.2., InstaRecon, 2.0.4.0. InstaRecon). This software was used to adjust the following parameters while reconstructing the images; Beam Hardening Correction (%) was set at 51, Ring Artifact Correction at 9, Smoothing at 1, Post alignment compensation and Histogram windows were manually adjusted for each scan. After obtaining reconstruction of the images, AnalyzePro software (AnalyzeDirect, Inc., Overland Park, KS, USA) was used to measure the volume of the vasculature and the volume of the total nerve. A vessel/nerve area ratio was calculated and expressed in percentages (vessel%).
+ Open protocol
+ Expand
For micro–computed tomography (μCT) analysis, mice were euthanized, mandibles from 1‐month‐old, 3‐month‐old, and 6‐month‐old wild‐type (WT) and Col6α2‐KO mice were dissected, fixed for 24 hours at room temperature in Z‐fix (Anatech, Ltd, Battle Creek, MI, USA) and then stored in 70% ethanol at 4°C. The three‐dimensional (3D) reconstructed images of mandibles were acquired using a μCT scanner (μCT 50; Scanco Medical AG, Bassersdorf, Switzerland) with the following parameters: 70‐kV X‐ray source voltage, 85 μA of intensity/beam current, power at 6 W, 300 ms integration time, with an image resolution of 6 μm. The 3D mandible images were differentially segmented by a global thresholding software, and BV/TV was measured using AnalyzePro software (AnalyzeDirect, Inc., Stilwell, KS, USA).
+ Open protocol
+ Expand

Example 4

C57BL/6 mice received orchiectomy (ORX) or sham surgery at nine weeks of age. Following a six-week recovery period, during which time the ORX mice developed an osteoporotic phenotype, ORX mice received intraperitoneal injections twice weekly of either vehicle or ActRIIA/B-Fc (SEQ ID NO: 69 fused to an Fc domain, 20 mg/kg). Micro-CT (Perkin Elmer Quantum Fx) imaging was conducted at study-end. ASBMR bone morphometry parameters of each dataset were calculated with AnalyzePro software (AnalyzeDirect, Overland Park KS) using the Bone Morphometry Analysis Add-on. A 50-slice region of CT volume immediately distal to the proximal tibial growth plate was selected to assess changes in trabecular bone parameters. As shown in FIG. 3, Treatment with ActRIIA/B-Fc increased bone volume fraction (reduced bone loss) associated with orchiectomy (*=p≤0.05; ****=p≤0.0001).

+ Open protocol
+ Expand
Micro-computed tomography (micro-CT) scans were performed to assess the volumes of the visceral adipose tissue (VAT) and subcutaneous adipose tissue (SAT). A representative sample of rats from each group were randomly selected at T1 and anesthetized with 5% isoflurane. Transverse micro-CT images of the abdomen from L1 to L5 were obtained by the micro-CT scanner Quantum FX µCT (Perkin-Elmer, Hopkinton, MA, USA) in the animal facility of ATeN Center—University of Palermo. Voltage was set at 50 kV and current was set at 200 μA and the images were captured over a 4.5 min interval. Analysis of micro-CT images was conducted with AnalyzePro software (AnalyzeDirect, Overland Park, KS, USA). Visceral and subcutaneous adipose tissue was segmented in the sagittal plane and measurements of volume obtained with the Region of Interest mode. Tissue volumes are expressed relative to body mass. Procedures were performed following standardised protocols [45 (link)].
+ Open protocol
+ Expand
For µCT analysis, mice were euthanized, and mandibles were dissected from 3-month-old WT and Col6α2-KO and fixed for 24 h at room temperature in Z-fix (Anatech, LTD, Battle Creek, MI, USA) and then stored in 70% ethanol at 4 °C. The 3-D reconstruction image of mandibles were acquired using micro-CT system (µCT 50, Scanco Medical AG, Bassersdorf, Switzerland) with the following parameters: 70 kV X-ray source voltage, 85 µA of intensity/beam current, power at 6 W and integration time at 300 ms. The image resolution was 6 µm. The 3D mandible images were rendered, and Bone volume (BV) and mineral density were measured using AnalyzePro software (AnalyzeDirect, Overland Park, KS, USA). To measure the PDL width, a region of interest (ROI) was determined using the cemento-enamel junction (CEJ) and the apex of the root. The middle position of root was calculated from the CEJ and the apex of the root, and 25 slices from the middle position to the CEJ side and 25 slices from the middle position to the apex side was used for the ROI (1 slice = 6 µm).
+ Open protocol
+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required

Sign up now

Revolutionizing how scientists
search and build protocols!