MicroStation System, MicroLog Version 4.2 - DTU Systems Biology ...

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Appendix 5: Program Printouts FF Printout Key 1. Software version 2. If the printout is from a saved file, this entry lists file name, position of the entry in the file, and edit status. 3. Threshold mode. This listing may say “Manual” or “Automatic.” In Automatic mode, the software automatically calculates a threshold cutoff for negative and positive reactions, indicated by numerical OD values. Any values between these two numbers are considered borderline. The threshold can change from MicroPlate to MicroPlate, depending on the intensity of the positive reactions and the clarity of the negative reactions. Two thresholds are given for the FF MicroPlate: color (for 490 nm readings) and turbidity (for 750 nm readings). 4. Filters and their positions 5. Time MicroPlate was read 6. Time file was modified 7. Does user have Unrestricted Access to software? 8. Number of MicroPlate 9. Sample identifiers 10. Operating mode (file) 11. Number of positive, borderline, and negative reactions and listed for color and turbidity 12. Name of database searched 13. OD data for each well (in 8x12 format) • For color data: The numbers seen in each well is the percent change data of the optical density of the difference between 490nm and 750 nm compared to the A1 control well (A1 will always be 0). The Dual Wavelength Data formula =. DWD = (490nm - 750nm)x - (490nm - 750nm)A1 x 1000, where x = any well. The turbidity is subtracted out to obtain the OD contributed by the color • For the Turbidity Data: The numbers seen in each well is the percent change data of the optical density of the 750 nm readings compared to the A1 control well (A1 will always be 0). The % Change formula = % Change 750nm = (750nmx - 750nmA1 ) x 1600, where x = any well* • Positive (), borderline ({}), and negative reactions (no brackets). Numbers with no brackets and a plus (+) on the right side are mismatches. The well read as negative, but at least 80% of the strains of that organism tested in our database were positive for that well. Numbers with a < on the left and a minus (– ) on the right are also mismatches, but the well read as positive, while the strains in our database were mostly negative for that well. Numbers with a minus (-) to the left of the well value mean that the well’s OD was less than the OD of the control well. 14. Species Identification/#1 identification 15. #2-9 identifications *We use a larger multiplication factor for the turbidity to have the OD readings on the same scale as 490 readings. MicroStation System/MicroLog User Guide Apr 07 Section 13 � Page 45
Appendix 5: Program Printouts Print ranked data headers printout (sample) Section 13 � Page 46 - MicroStation System/MicroLog User Guide Apr 07
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MicroStation System MicroLog Versi
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LICENSE AGREEMENT Notice: This is a
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Table of Contents Section Title 1.
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10. Frequently Asked Questions…
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Welcome Section 1 � Page 2 Connec
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2. Installation and Registration In
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Installation and Registration The A
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8. E-mail the User Key File to tech
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MicroStation System/MicroLog Overvi
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Follow directions closely to obtain
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Preparing Samples Preparing an inoc
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Preparing Samples Recognizing fasti
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Preparing Samples Media shorthand:
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Preparing Samples Don’t forget to
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Preparing Samples b. Use a sterile
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Preparing Samples aids in liquefyin
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Preparing Samples Caution! Pipet th
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Preparing Samples Special Procedure
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Preparing Samples Initial culture m
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Reading MicroPlates Set Up tab Sele
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Reading MicroPlates When you’re e
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Reading MicroPlates 2. Enter reacti
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Reading MicroPlates Entering sample
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Reading MicroPlates Select file nam
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Reading MicroPlates Naming Workshee
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Reading MicroPlates This arrow show
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Reading MicroPlates Using Worksheet
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Reading MicroPlates 4. Click Save t
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Reading MicroPlates Wells with high
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Reading MicroPlates Exiting When yo
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Interpreting Results Understanding
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Interpreting Results Mismatch Type
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Interpreting Results What are those
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Interpreting Results NOTE: A1 value
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Interpreting Results Slide the scro
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Interpreting Results VS. CURRENT MI
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Interpreting Results “Other” fi
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Data Management and Compiling Datab
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Combining Data Files Data Managemen
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OK, Out, Hold, Atypical Sorting lab
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Remember! When building your own da
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DATABASE WINDOW Data Management and
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Arrow indicates selected entry Data
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Export Help Mark this choice if you
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8. Administration and Security In t
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Important! • If you test Password
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Log-In Privileges Administration an
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Remember that the password must be
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9. Technical Notes In this section:
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Making Biolog Universal Growth Agar
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� � � � Technical Notes Gen
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10. Frequently Asked Questions In t
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Q A Q A Q A Frequently Asked Questi
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Troubleshooting Symptom Cause Solut
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Page 133 and 134: Glossary Dendrogram Cluster diagram
Page 135 and 136: Glossary Spore, fungal Sterile, fun
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Page 139 and 140: Appendices: Notes Notes: Section 13
Page 141 and 142: Appendix 4: Database Species Lists
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Page 187 and 188: Appendix 6: Dangerous Pathogens (DP
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MicroStation System, MicroLog Version 4.2 - DTU Systems Biology ...

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