Attachment 1 - Purchase Description.pdf

Attachment 1

PURCHASE DESCRIPTION

1. Statement of Need and Purpose: Neurocognitive Aging Section (NAS) needs to renew and upgrade software subscriptions and support services for MBF Bioscience products that they use in conjunction with their microscope systems in order to continue ongoing NAS experiments.

2. Background Information and Objective: NAS staff conducts numerous experiments that include morphometric analysis of brain tissue visualized on one of their microscope systems. To do this, NAS has equipped their microscope/imaging systems with MBF Bioscience software that allows for analysis such as cell counting, cell size assessment, neuron tracing, and tract tracing.

In order for these systems to continue to work properly NAS needs to renew the software subscription and support services for this fiscal year.

3. Generic Name of Product: 1 Year Renewal of MBF Bioscience Software Upgrade and Support

Services

4. Purchase Description:

Software for System #1 (Leica DMRB Microscope System)

• Stereo Investigator - Microscope Edition: 1-year Software Upgrade and Support Services.

Provides software upgrades and remote online and telephone technical support.

Software for System #2 (Leica DM4000 Microscope System)

• Neurolucida - Microscope Edition: 1-year Software Upgrade and Support Services. Provides software upgrades and remote online and telephone technical support.

• Stereo Investigator - Microscope Edition: 1-year Software Upgrade and Support Services.

Provides software upgrades and remote online and telephone technical support.

Software for System #3 (Stand-Alone System)

• Neurolucida - Desktop: 1-year Software Upgrade and Support Services. Provides software upgrades and remote online and telephone technical support.

Software for System #4 (3D Core Solution Suite) Term License Renewals

• Annual Subscription for Facilities Solution: 3D Suite

Includes a suite of the following MBF Bioscience software with a mobile license:

-Neurolucida 360 Studio -Vesselucida 360 Studio -Stereo Investigator - Desktop -Stereo Investigator - Cleared Tissue -MicroFile+ -Mobile License Upgrade

• Annual Subscription for Neurolucida 360 Studio - Automatic neuron tracing and quantitative analysis software, with tools to automatically detect reconstruct and edit somas, dendrites, axons, spines, varicosities, and puncta in 3D.

Salient Characteristics:

- Full 3D environment for image visualization, rotation and zooming

- Handles large, high-resolution brightfield & fluorescence (wide field, confocal, two photon & light sheet) images

- Subvolume mode for instant navigation and integrated subvolume tracing in very large images

- Batch mode for unattended automatic tracing of multiple image files

- Image montaging for automated 3D alignment of multiple3D image stacks

- Clean Up feature for automatic auditing of tracing

• Annual Subscription for Vesselucida® 360- Software for automaic reconstruction and analysis of vessels and microvasculature.

- Full 3D environment for image visualization, rotation and zooming

- Smart manual mode for targeted manual vessel tracing in 3D

- User-guided mode for quick and easy semi-automatic vessel tracing in 3D

- Automatic mode for the fastest fully automatic vessel tracing in 3D

- Batch mode for unattended automatic vesel tracing of multiple image files

- Handles big, high-resolution brightfield & fluorescence (widefield, confocal, two-photon & lightsheet) images

- Includes Software Upgrade and Support Services

- Requires Windows 10, 64 bit, PC (not included).

• Annual Subscription for Vesselucida Explorer -Windows 10 version:

Generate data reports

- From individual vessels to entire vascular structure VEX-10-12c

- From defined diameters of segments

- On continuous vessel segments

Anastamoses Analyses

- Define loops, number of nodes, avg. diameter

- Data reports on anastamoses in vasculature

- Navigate through loops without having to run an analysis

Batch Analysis

- Run multiple analyses on multiple data files simultaneously

- Save files directly into Microsoft Excel

• Annual Subscription for Stereo Investigator - Cleared Tissue Edition: Analysis software for performing unbiased stereology on whole or partial specimens that have been cleared using methods such as CLARITY, 3DISCO, FluoClearBABB, etc. that have been imaged using lightsheet, confocal scanning, or 2-photon microscopes. Includes the capability to directly read most lightsheet, confocal, and 2-photon microscope 3D image stacks. Also includes Software Upgrade and Support Services

• Annual Subscription for Stereo Investigator - Desktop Edition version (no control of motorized microscope, stage or camera). For unbiased stereology, image analysis, and 2D anatomical mapping. Includes the capability to read in most confocal, brightfield and fluorescent 3D image stacks. Requires Windows 10, 64 bit, PC (not included). Indudes 12 months of software license, software upgrades and technical support.

• Mobile License Upgrade. Allows installation of software on multiple PCs, only one of which can be used at any given time.

• Annual Subscription for Neurolnfo Studio: Automatically delineate and identify mouse brain regions in experimental specimens based on the digital Allen Mouse Brain Atlas. Includes BrainMaker for creating full-resolution 3D images from serial sections. Also includes Software Upgrade and Support Services.

- Registers serial section images of any orientation to the Allen Mouse Brain Atlas

- Delineates anatomies in the experimental anatomic space

- Automatic cell detection and reporting on cell number within selected anatomies

- Corrects for distortion due to histological processing

- Combines all image measurements to anatomies in the Allen Mouse Brain Atlas for cross cohort, or experiment comparisons.

BrainMaker includes functionality to:

- Combine data from multiple whole-slide images or virtual slides

- Specify serial section order across slides

- Automatic alignment of serial sections with optional manual intervention

- Automatic correction of upside-down and flipped sections

- Save registered sections as 3D image volumes at selectable output resolutions

- 3D Visualization of aligned image volumes

- Read all major whole-slide image file formats

All aligned image volumes are compatible with Neurolucida and Stereo Investigator for quantitative analysis, and can be served by Biolucida for analysis or collaboration

• Annual Subscription for Neurolucida Explorer - Windows 10 version:

- Enhanced 3D environment to zoom, pan & rotate

- Structural, anatomical, spatial, and orientation analyses of neurons:

- Branch Angle & Structure

- Dendrogram & Vertex

- Closed Surface & Proximity

- Tangential Distribution

- 3D Wedge, Convex Hull, Sholl

- Layer Length & Wedge

- Polar Histogram & Fan-In Diagram

- Structural, anatomical, and anastomoses analyses of vessels (exclusive to the "Neurolucida

360 Ultra" package)

- Puncta colocalization and spatial analyses

- Marker & Region analysis

- Batch analysis for running multiple data files simultaneously

- Automatic export to Microsoft Excel

Software for System #5 (Stand-Alone System)

• Stereo Investigator - Desktop: 1-year Software Upgrade and Support Services. Provides software upgrades and remote online and telephone technical support.

Software for System #8 (Vesalius System)

• Microlucida: 1-year Software Upgrade and Support Services. Provides software upgrades and remote online and telephone technical support.

Software for System #10 (Stand-Alone System) Term License Renewals

• Annual Subscription for Neurolucida 360 Studio - Automatic neuron tracing and analysis, with tools to reconstruct and edit somas, dendrites, axons, spines, varicosities, and synapses in 3D.

- Full 3D environment for image visualization, rotation and z0oming

- Smart manual mode for targeted manual neuron tracing in 3D

- User-guided mode for quick and easy semi-automatic neuron tracing in 3D

- Automatic mode for the fastest fully automatic neuron tracing in 3D

- Clean Up feature for automatic auditing of tracing: exclusive to Studio package

- Batch mode for unattended automatic neuron tracing of multiple image files

- Integrated subvolume tool for dynamic tracing of very large images; exclusive to Studio package

- Automatic dendritic spine detection, modeling, classification; exclusive to Studio package

- Automatic detection and modeling of puncta in 3D with specialized machine learning capability;

exclusive to Studio package

- Automatic varicosity detection; exclusive to Studio package

- Image montaging for automated 3D alignment of multiple 3D image stacks

- Handles big, high-resolution brightfield & fluorescence (wide field, confocal, two-photon & light sheet) images

- Includes Software Upgrade and Support Services

- Requires Windows 10, 64 bit, PC (not included).

• Annual Subscription for Neurolucida Explorer - Windows 10 version:

- Enhanced 3D environment to zoom, pan & rotate

- Structural Analysis:

o Branch Angle & Structure o Dendrogram & Vertex

-Anatomical Analysis:

o Closed Surface & Proximity o Tangential Distribution

-Spatial Analysis:

o 3D Wedge, Convex Hull, Sholl o Layer Length & Wedge

-Orientation Analysis:

o Polar Histogram & Fan-In Diagram o Colocalization analysis o Marker & Region analysis o Automatic export to Excel o Advanced 3D movies

5. Quantity: 1

6. Period of Performance:The anticipated period of performance consists of a base period and three 12-month option periods as follows:

Base Period: 9/24/2024 – 9/23/2025 Option Period 1: 9/24/2025 – 9/23/2026 Option Period 2: 9/24/2026 – 9/23/2027 Option Period 3: 9/24/2027 – 9/23/2028

PURCHASE DESCRIPTION