Media 000117080: Vertebrae
Restricted Download
Type Volumetric Image Series
Modality X-Ray Computed Tomography (CT/microCT)
Media represents biological specimen
AMNH:Mammals:M-241121 Galagoides demidovii
Managed by
AMNH Mammalogy Department

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Media produced from the same original imaging that created Media 000117080 (this media). Includes all media associated with this media through an imaging and processing workflow.

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Team
· Public
Project
· Public

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GENERAL DETAILS Field Definitions

Media ID
000117080
Media type
Volumetric Image Series
Object element or part
vertebrae
Object represented
AMNH:Mammals:M-241121
Object taxonomy
Galagoides demidovii
Object organization
AMNH Mammal Collections
Side
--
Orientation
--
Short description
HRXCT scan - vertebrae
Full description
University of Texas High-Resolution X-ray CT Facility Archive Nishimura: SetC: Four sets of primate cervical vertebrae and thoracic vertebrae scanned together; archived as separate sets for Abigail Nishimura of Stony Brook University. Specimens scanned by Matthew Colbert on 18 July 2017. 16bitTIFF: Scan parameters: NSI scanner. Fein Focus Microfocal source, 160 kV, 0.17 mA, aluminum filter, Perkin Elmer detector, 0.25 pF gain, 1 fps, 1x1 binning, no flip, source to object 179.14 mm, source to detector 1316.731 mm, continuous CT scan, no frames averaged, 0 skip frames, 3000 projections, 5 gain calibrations, 5 mm calibration phantom, data range [-2.0, 20.0] (grayscale adjusted from NSI defaults), beam-hardening correction = 0.1. Post-reconstruction ring correction applied to galmoh only by Jessie Maisano using parameters oversample = 2, radial bin width = 21, sectors = 32, minimum arc length = 8, angular bin width = 9, angular screening factor = 4, grayscale range [22784, 65535]. Voxel size = 19.9 μm. Total slices = 1698. Galdem241121: Vertebrae of Galago demidoff (AMNH 241121; Africa: Ghana, Eastern Region, 9 miles North East of Accra; C1- T1). 16bitTIFF: 386 slices; scan parameters as above. 8bitJPG: 8bit jpg version of the above images.
Creator
Matthew Colbert
Date created
July 18, 2017
Date uploaded
June 02, 2020

FILE OBJECT DETAILS Field Definitions

File name
16bit.zip
File format(s)
ZIP archive, TIFF
File size
552 MB
Image width
1166
Image height
738
Color space
BlackIsZero
Color depth
16
Compression
--
Series type
Reconstructed image stack
X pixel spacing
0.019900
Y pixel spacing
0.019900
Z pixel spacing
0.019900
Pixel spacing units
Mm
Slice thickness
--
Number of images in set
386

IMAGE ACQUISITION AND PROCESSING AT A GLANCE Field Definitions

Number of parent media
0
Number of processing events
1 (0 steps)
Modality
X-Ray Computed Tomography (CT/microCT)
Device
North Star Imaging NSI Custom build, The University of Texas High-Resolution X-ray Computed Tomography Facility (University of Texas at Austin)

OWNERSHIP AND PERMISSIONS Field Definitions

Data managed by
AMNH Mammalogy Department
Data uploaded by
Barbara Sulbaran
Publication status
Restricted Download
Download reviewer
Jessie Maisano; Neil Duncan; AMNH Mammalogy Department
IP holder
AMNH Dept of Mammalogy
Copyright statement
 Copyright Undetermined
Creative Commons license
--
Morphosource use agreement type
Standard
Permits commercial use
Commercial Use Not Permitted
Permits 3D use
3D Printing Permitted
Required archival of published derivatives
On MorphoSource
Funding attribution
DBI-1902242
Publisher
oUTCT PEN
Cite as
Abigail Nishimura provided access to these data, with data upload to MorphoSource funded by DBI-1902242. The files were downloaded from www.MorphoSource.org, Duke University.
Media preview mode
Interactive/Embeddable
Additional usage agreement
None

IDENTIFIERS AND EXTERNAL LINKS Field Definitions

MorphoSource ARK
 ark:/87602/m4/M117080
MorphoSource DOI
Not assigned
External identifier
--
External media URL
--

IMAGE ACQUISITION AND PROCESSING IN DETAIL

STEP 1: IMAGE ACQUISITION

Physical object AMNH:Mammals:M-241121 was imaged to create undeposited raw media.

IMAGING DETAILS Field Definitions

Modality
X-Ray Computed Tomography (CT/microCT)
Device
Device facility
The University of Texas High-Resolution X-ray Computed Tomography Facility (University of Texas at Austin)
Creator
Matthew Colbert
Event date
--
Software
--
Description
--
Description attachment
None
Reference attachment
None
Filter
--
Exposure time
--
Flux normalization
No
Pixel spacing calibration
--
Shading correction
No
Frame averaging
--
Projections
3000
Voltage
160
Power
--
Amperage
170
Surrounding material
0.25 pF gain
X-ray tube type
--
Target type
--
Detector type
--
Detector pixels X
--
Detector pixels size X
--
Detector pixels Y
--
Detector pixels size Y
--
Detector configuration
--
Source object distance
--
Source detector distance
--
Target material
--
Rotation number
--
Phase contrast
--
Optical magnification
--
Acquisition type
--

STEP 2: IMAGE PROCESSING

Raw media (undeposited) was processed to create derived Media 000117080: Vertebrae [CTImageSeries] [CT] (this media).

Processing Details Field Definitions

Creator
Matthew Colbert
Event date
--
Software
--
Description
--
Description attachment
None

Media produced by this event on MorphoSource

Media 000117080: Vertebrae [CTImageSeries] [CT] (this media)