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

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On all progressive data windows: Click on a specific well to select it. Find well information in “Key” box. Click “Set to Current Data Value” to return all settings to number of positive reactions your current MicroPlate has. Interpreting Results Progressive data analysis MicroLog software uses a new method of pattern matching called Progressive ID (PID). The PID method takes into account the progressive nature by which purple color forms in the wells of the MicroPlate. What typically happens after cells are inoculated is that some wells turn purple quickly and strongly, resulting in dark purple wells. These are usually the preferred carbon source for the microbe. After additional incubation, other wells also turn purple, sometimes forming weaker purple wells. For example, if a MicroPlate has 23 purple wells, PID will compare the pattern to the other species in the database at their stage of development when they also had 23 purple wells. Each species in the database responds to the search, as if to say “This is my pattern when I had 23 positive reactions.” PID finds the best match among the species in the database. The mathematics of matching the species to the pattern is otherwise identical to that used in the previous method of End-point ID (EID). Reaction range This display shows the entire metabolic progression of the species in a single image. The boxes are entirely purple when the well is positive 100% of the time. A teal color indicates that the well is positive from 20% to 80% of the time. Empty boxes indicate that the substrate is used < 20% of the time. Each box contains a black line that shows how many positive reactions are on the given MicroPlate. This black line is a gauge of progressive identification. The top right corner of the window contains a key showing the current reaction of a specific well and how often it is positive. REACTION RANGE WINDOW MicroStation System/MicroLog User Guide Apr 07 Section 6 � Page 9
Interpreting Results Slide the scroll bar left and right to represent various levels of positive reactions. As the vertical line moves across each well of the on-screen MicroPlate, it indicates where in the histogram a chosen positive well value falls. • The purple area under the graph (histograms) represents when a well is positive for that species. • A box that is completely purple is always positive for that species. This is a preferred carbon source for that species. • A box that has limited levels of purple is only positive when there are relatively high numbers of positive wells on the MicroPlate. • Teal represents borderline well reactions. • You can click on any well and it will appear as the example shown on the key at the top. Specific pattern This display shows the numerical pattern for the species at a specific level of positive reactions. This is a more explicit display of the Reaction Range display. For the number of positive reactions (indicated below the display and adjusted by using the scroll bar), this is the percentage of times that a specific well is positive. • A well that is 100 when the scroll bar is far to the left is a well that is always positive for that species, even when it has few positive reactions. • A well that is only 100 when the scroll bar is to the far right is a well that is only positive when the species has many positive reactions. • A well that contains a low number or zero is a well that is rarely or never positive, even when the species has expressed its full metabolic potential. Section 6 � Page 10 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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Page 29 and 30: Preparing Samples Preparing an inoc
Page 31 and 32: Preparing Samples Recognizing fasti
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Page 35 and 36: Preparing Samples Don’t forget to
Page 37 and 38: Preparing Samples b. Use a sterile
Page 39 and 40: Preparing Samples aids in liquefyin
Page 41 and 42: Preparing Samples Caution! Pipet th
Page 43 and 44: Preparing Samples Special Procedure
Page 45 and 46: Preparing Samples Initial culture m
Page 47 and 48: Reading MicroPlates Set Up tab Sele
Page 49 and 50: Reading MicroPlates When you’re e
Page 51 and 52: Reading MicroPlates 2. Enter reacti
Page 53 and 54: Reading MicroPlates Entering sample
Page 55 and 56: Reading MicroPlates Select file nam
Page 57 and 58: Reading MicroPlates Naming Workshee
Page 59 and 60: Reading MicroPlates This arrow show
Page 61 and 62: Reading MicroPlates Using Worksheet
Page 63 and 64: Reading MicroPlates 4. Click Save t
Page 65 and 66: Reading MicroPlates Wells with high
Page 67 and 68: Reading MicroPlates Exiting When yo
Page 69 and 70: Interpreting Results Understanding
Page 71 and 72: Interpreting Results Mismatch Type
Page 73 and 74: Interpreting Results What are those
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Page 93 and 94: DATABASE WINDOW Data Management and
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Page 111 and 112: Important! • If you test Password
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Page 119 and 120: Making Biolog Universal Growth Agar
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Troubleshooting Symptom Cause Solut
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Troubleshooting Preparing Inocula S
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Troubleshooting MicroStation Reader
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Glossary Dendrogram Cluster diagram
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Glossary Spore, fungal Sterile, fun
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Culture Media Atmosphere Temperatur
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Appendices: Notes Notes: Section 13
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Appendix 4: Database Species Lists
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Appendix 5: Program Printouts Appen
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Appendix 5: Program Printouts 1�
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Appendix 5: Program Printouts Funga
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Appendix 5: Program Printouts Print
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Appendix 6: Dangerous Pathogens (DP
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MicroStation System, MicroLog Version 4.2 - DTU Systems Biology ...

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