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= Archive Terminology =
= The Archive =


'The Archives' - Collection of animal tissues, digital media, document boxes, the details of which this page is concerned with.<Br>
'The Archives' - Collection of animal tissues, digital media, document boxes, the details of which this page is concerned with. Previously called NRA, now NURA. Consider using the Wiki's Search function if you have something specific you are looking for.<Br>


HRAD - Health Risk Assessment Department. Of what institution???. HRADnn is also the "Platter Code" for a series of MO disks that were recently (March 2022) archives to the NU Radonc disk store.<br>
* [[Archive Terminology]]: A list of acronyms commonly used within the archives. Everything from institution names to projects to departments.
ITRI - Inhalation Toxicology Research Institute.<br>
* [[Archive Technology]]: A list of Software (Databases, subsystems, etc. used within the historical NRA archive)
LRRI - Lovelace Research Institute. See ITRI<br>
* [[Archive Boxes]]: Physical boxes of the archives. Their storage, categorization, contents, etc.
NRA - National Radiobiology Archives: An archival program that was started in 1989 to collect, organize, and catalog data, laboratory notebooks, and animal tissue specimens from government. The NRA is part of a greater international program that includes the European Radiobiology Archives (ERA) and the Japanese Radiobiology Archives (JRA). C.R. Watson<br>
* [[Archive Tissues]]: Slides, Paraffin blocks, etc.
[https://www.bfs.de/EN/bfs/science-research/projects/era/era_node.html ERA] - European Radiobiology Archives. G.B. Gerber<br>
* [[Archive Methods]]
JRA - Japanese Radiobiology Archives. T. Sugahara and S. Okada<br>
* [[Medical Records]]
USTUR - U.S. Transuranium and Uranium Registries<br>
* [[Archive Database]]
DAVIS - University of California at Davis<br>
[http://www.roelee.co.uk/RL_Intro.html RoeLee] - Software which is a Histopathology and Necropsy system. There are references to this system in the Optical Archives. Tatjana is interested because it may contain electronic lab notebooks.<br>
[https://en.wikipedia.org/wiki/Magneto-optical_drive MO] - Magneto Optical: A type of media which encased in plastic which on the inside looks like a compact disc. Rewriteable.<br>
Paradox - A relational database used by the archives in the past. One of many.<br>
Oracle - A relational database used by the archives in the past. One of many.<br>
dBase - A database used by the archives in the past. One of many. Whether one considers it a relational database can be questioned.<br>
[https://en.wikipedia.org/wiki/VAX VAX] - A likely very heavy computer. These likely used 9-track reel-to-reel tapes which were later converted/archived to the optical disk store.<br>
Papyrus - Some manner of software.<br>
[https://en.wikipedia.org/wiki/PC_Tools_(software) PCT] - Pc Tools. Old DOS software but relevant because compressed files exist which utilized Central Point Backup<br>
Alphatronix - Possibly an old backup system or software. References to it in the MO archives are present.
XCOPY - An old DOS command often used to make backups / archives. Commonly used when it is necessary to work with entire directories.
UTAH - University of Utah<br>
PNNL - Pacific Northwest National Laboratory<br>
ORNL - Oak Ridge National Laboratory<br>
ANL - Argonne National Laboratory<br>
WSU - Washington State University. The previous home of 'the archives'.<br>
SNODOG - A standardized morphology diagnosis code.<br>
SNOP - Possibly an old morphology diagnosis code preceding SNODOG. Needs verification.<br>


[https://en.wikipedia.org/wiki/9_track_tape 9-track] - A type of reel-to-reel magnetic tape media. We have (so far) discovered two of these tapes, however, digitization efforts are deferred as they are likely already contained within the optical HRAD archive which has been made available on the NU Radonc disk store.<br>
* [http://janus-cloud2.s3.amazonaws.com/www/dog_tissues/reports_broken/red_book.pdf Red Book]


== People ==
<code>PERSON.DB</code> and <code>PHONE.DB</code>May be of interest...<br>
SKS - Sean K. Smith: Computer Scientist<br>
CRW - Chuck Watson: Director of NRA (National Radiobiology Archives)<br>
RGT - Robert Thomas Glenn: <br>
EKL - Earleen Ligotke: Archivist and clerk Preserves dog studies and documents<br>
NAH - Nancy Holter: Computer Scientist<br>
SDS - Shanna Schmidt: Administrative Specialist<br>
James Newell Stannard* - <br>
Ed Kidd* - (Director of ESTSC / Energy Science & Technology Software Center / Oak Ridge)<br>
Philip C. Pulver (PNL)<br>
Bill Morgan - <br>
Tom Fritz - <br>
James F. Park* - PI on [[Experiment 140]]<br>
Cliff Burton - Database Administrator at LEHR<br>
Charles Leonard Sanders (aka C.L. Sanders) (aka 'Chuck') - PNL/PNNL/Battelle Rodent Studies<br>
<p><nowiki>* Deceased.</nowiki></p>


= Timeline of experiments and major archive events =
== Timeline of experiments and major archive events ==
* 1989 - Creation of the NRA
* 1989 - Creation of the NRA
* 1992 - ITRI files donated to the NRA. [https://ustur.wsu.edu/nra-document-archives/ UC Davis Collection donated to PNL.]
* 1994 - Transfer of Information to the National Radiobiology Archives: In 1994, the records stored on the VAX computer were transferred to the PC environment and converted to PARADOX tables. This was part of the process of donating the information to the National Radiobiology Archives
* 1994 - Morat.txt "DOE/RL announced today an indefinite moratorium on ADP equipment and furniture acquisition. This memo describes impacts of the moratorium on operation of the Health Risk Assessment Department (HRAD).
* 1996 - The NRA program was transferred from Pacific Northwest National Laboratory (PNNL), operating for the U.S. Department of Energy, to the USTUR operations at WSU in 1996. The initial transfer included a limited collection of paraffin-embedded tissue blocks, microscope slides, clinical notes, pathologist observations, and several pieces of computer equipment. These specimens have been cataloged and are housed with the USTUR archives. Although the original archive collection at the NRA included formalin and/or alcohol-fixed tissues and thousands of radiographic films, concerns over the storage of such hazardous materials, coupled with budgetary constraints, led to proper disposal of these items which therefore were not transferred to the Registries with the other materials.  
* 1996 - The NRA program was transferred from Pacific Northwest National Laboratory (PNNL), operating for the U.S. Department of Energy, to the USTUR operations at WSU in 1996. The initial transfer included a limited collection of paraffin-embedded tissue blocks, microscope slides, clinical notes, pathologist observations, and several pieces of computer equipment. These specimens have been cataloged and are housed with the USTUR archives. Although the original archive collection at the NRA included formalin and/or alcohol-fixed tissues and thousands of radiographic films, concerns over the storage of such hazardous materials, coupled with budgetary constraints, led to proper disposal of these items which therefore were not transferred to the Registries with the other materials.  
* 2006 - PNL Materials transferred to USTUR as WSU.
* 2010 - All materials associated with the NRA program were transferred to Northwestern University.
* 2010 - All materials associated with the NRA program were transferred to Northwestern University.
* 2010 - "Beaglecon" happened in Richland, Washington in July of 2010. At this gathering, many key figures were present (Tom Fritz, Chuck Watson, etc.). This is where Ben was given data from Chuck Watson: it has been placed onto a 2.5" USB "Iomega" External Hard drive. There are also audio recording of this event (presumably taken by Ben), which Tanja mentioned she would like to have transcribed via software or service.
= Beagle Data Congress =
* [https://janus-cloud2.s3.amazonaws.com/www/nira/images/4/4c/Beagle_Data_Congress_Day_1_8-10.mp3 Introductions by Morgan, Historical Overview from McCellan, and Materials Description from ITRI by McClellan and PNNL by Park]
* [https://janus-cloud2.s3.amazonaws.com/www/nira/images/a/ad/Beagle_Data_Congress_Day_1_10-12.mp3 Study and Materials descriptions from Utah by Miller, Argonne by Fritz, UC Davis by Goldman, and Colorado State by Benjamin]
* [https://janus-cloud2.s3.amazonaws.com/www/nira/images/b/b4/Beagle_Data_Congress_Day_1_1-3.mp3 Current data projects description by Wilson]
* [https://janus-cloud2.s3.amazonaws.com/www/nira/images/5/52/Beagle_Data_Congress_Day_1_3-5.mp3 Future Analyses by Brooks]
* [https://janus-cloud2.s3.amazonaws.com/www/nira/images/b/b6/Beagle_Data_Congress_Day_2_8-10.mp3 Repository descriptions for the NRA by James, Northwestern by Woloschak, and ITRI by Guilmette]
* [https://janus-cloud2.s3.amazonaws.com/www/nira/images/1/1c/Beagle_Data_Congress_Day_2_10-12.mp3 Use of Data and Material by Hahn and Dagle]
* [https://janus-cloud2.s3.amazonaws.com/www/nira/images/7/70/Beagle_Data_Congress_Day_2_1-3.mp3 Relevance to Humans by Raabe]
* [https://janus-cloud2.s3.amazonaws.com/www/nira/images/f/f4/Beagle_Data_Congress_Day_2_3-4.mp3 Documentation Concerns by Haley]
* [https://janus-cloud2.s3.amazonaws.com/www/nira/images/5/5d/Beagle_Data_Congress_Day_2_4-5.mp3 Documentation Fun by Watson]
= Todo =
* Unearth EasyCASE software. Open mystery files. SKS seems mostly responsible for leading the charge in using this software...
* Maybe we want to have a chat with SKS?
* Move vm to linux, automate .ps to .pdf print functionality.
* Controls Database
* Figure out what the deal is with Focus Hierarchical Database.


= Unknown Terminology =
= Unknown Terminology =
Anything which is either partially understood or completely unknown should go here:<p>
Anything which is either partially understood or completely unknown should go here:<p>
 
ANI - This is the name of a database table, however, maybe it stands for something. Knowing this could be useful...<br>
RIB - Possibly Diagnosis codes similar to SNODOG????????<br>
AFIP - Possibly diagnosis codes used by UTAH, however, this is also an institution in and of itself. Possibly this: https://en.wikipedia.org/wiki/Armed_Forces_Institute_of_Pathology Needs confirmation...<br>
RIB - Possibly Diagnosis codes similar to SNODOG???????? Possibly "Radioanalysis Inventory for Biology System Description"<br>
PAL - Some manner of computer scripts. Also Object PAL.<br>
PAL - Some manner of computer scripts. Also Object PAL.<br>
Datatrieve - Some mischief having to do with VAX maybe????<br>
CSU - ???<br>
IRDS - Information Resource Dictionary System. A horrible little acronym that says nothing about what it actually is.<br>
IRDS - Information Resource Dictionary System. A horrible little acronym that says nothing about what it actually is.<br>
[[RDM]] - NOT CLEAR. There is a reference in <code>960102/HISTO/README.TXT</code>: "These files are intended for use by the RDM consultant." Any chance this could be related to Roelee? <code>PNL_DOC.SAM</code> also references "Walt developed a report procedure, named NRA, on his RDM database management system." <code>NRA_U_CM.DTR</code> suggests this is related to a Microvax in Utah "The input file is a report generated by RDM on the Utah micro VAX."


= Queued questions for persons of interest =
= Queued questions for persons of interest =
 
* Possibly a question for Prof. G.B. Gerber, Mol, Belgium
** Was RoeLee 84 used extensively? What was the nature of any data and does it still exist somewhere?


= Lab Equipment and SOPs =
= Lab Equipment and SOPs =

Latest revision as of 20:22, 20 October 2023

The Archive

'The Archives' - Collection of animal tissues, digital media, document boxes, the details of which this page is concerned with. Previously called NRA, now NURA. Consider using the Wiki's Search function if you have something specific you are looking for.

People

PERSON.DB and PHONE.DBMay be of interest...
SKS - Sean K. Smith: Computer Scientist
CRW - Chuck Watson: Director of NRA (National Radiobiology Archives)
RGT - Robert Thomas Glenn:
EKL - Earleen Ligotke: Archivist and clerk Preserves dog studies and documents
NAH - Nancy Holter: Computer Scientist
SDS - Shanna Schmidt: Administrative Specialist
James Newell Stannard* -
Ed Kidd* - (Director of ESTSC / Energy Science & Technology Software Center / Oak Ridge)
Philip C. Pulver (PNL)
Bill Morgan -
Tom Fritz -
James F. Park* - PI on Experiment 140
Cliff Burton - Database Administrator at LEHR
Charles Leonard Sanders (aka C.L. Sanders) (aka 'Chuck') - PNL/PNNL/Battelle Rodent Studies

* Deceased.

Timeline of experiments and major archive events

  • 1989 - Creation of the NRA
  • 1992 - ITRI files donated to the NRA. UC Davis Collection donated to PNL.
  • 1994 - Transfer of Information to the National Radiobiology Archives: In 1994, the records stored on the VAX computer were transferred to the PC environment and converted to PARADOX tables. This was part of the process of donating the information to the National Radiobiology Archives
  • 1994 - Morat.txt "DOE/RL announced today an indefinite moratorium on ADP equipment and furniture acquisition. This memo describes impacts of the moratorium on operation of the Health Risk Assessment Department (HRAD).
  • 1996 - The NRA program was transferred from Pacific Northwest National Laboratory (PNNL), operating for the U.S. Department of Energy, to the USTUR operations at WSU in 1996. The initial transfer included a limited collection of paraffin-embedded tissue blocks, microscope slides, clinical notes, pathologist observations, and several pieces of computer equipment. These specimens have been cataloged and are housed with the USTUR archives. Although the original archive collection at the NRA included formalin and/or alcohol-fixed tissues and thousands of radiographic films, concerns over the storage of such hazardous materials, coupled with budgetary constraints, led to proper disposal of these items which therefore were not transferred to the Registries with the other materials.
  • 2006 - PNL Materials transferred to USTUR as WSU.
  • 2010 - All materials associated with the NRA program were transferred to Northwestern University.
  • 2010 - "Beaglecon" happened in Richland, Washington in July of 2010. At this gathering, many key figures were present (Tom Fritz, Chuck Watson, etc.). This is where Ben was given data from Chuck Watson: it has been placed onto a 2.5" USB "Iomega" External Hard drive. There are also audio recording of this event (presumably taken by Ben), which Tanja mentioned she would like to have transcribed via software or service.

Beagle Data Congress

Todo

  • Unearth EasyCASE software. Open mystery files. SKS seems mostly responsible for leading the charge in using this software...
  • Maybe we want to have a chat with SKS?
  • Move vm to linux, automate .ps to .pdf print functionality.
  • Controls Database
  • Figure out what the deal is with Focus Hierarchical Database.

Unknown Terminology

Anything which is either partially understood or completely unknown should go here:

ANI - This is the name of a database table, however, maybe it stands for something. Knowing this could be useful...
AFIP - Possibly diagnosis codes used by UTAH, however, this is also an institution in and of itself. Possibly this: https://en.wikipedia.org/wiki/Armed_Forces_Institute_of_Pathology Needs confirmation...
RIB - Possibly Diagnosis codes similar to SNODOG???????? Possibly "Radioanalysis Inventory for Biology System Description"
PAL - Some manner of computer scripts. Also Object PAL.
IRDS - Information Resource Dictionary System. A horrible little acronym that says nothing about what it actually is.
RDM - NOT CLEAR. There is a reference in 960102/HISTO/README.TXT: "These files are intended for use by the RDM consultant." Any chance this could be related to Roelee? PNL_DOC.SAM also references "Walt developed a report procedure, named NRA, on his RDM database management system." NRA_U_CM.DTR suggests this is related to a Microvax in Utah "The input file is a report generated by RDM on the Utah micro VAX."

Queued questions for persons of interest

  • Possibly a question for Prof. G.B. Gerber, Mol, Belgium
    • Was RoeLee 84 used extensively? What was the nature of any data and does it still exist somewhere?

Lab Equipment and SOPs


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