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WO2000068810A1 - Logiciel d'affichage de donnees - Google Patents

Logiciel d'affichage de donnees Download PDF

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Publication number
WO2000068810A1
WO2000068810A1 PCT/US2000/012364 US0012364W WO0068810A1 WO 2000068810 A1 WO2000068810 A1 WO 2000068810A1 US 0012364 W US0012364 W US 0012364W WO 0068810 A1 WO0068810 A1 WO 0068810A1
Authority
WO
WIPO (PCT)
Prior art keywords
assay
dim
hdc
aplates
index
Prior art date
Application number
PCT/US2000/012364
Other languages
English (en)
Other versions
WO2000068810A8 (fr
WO2000068810A9 (fr
Inventor
Neil Carlson
Michelle A. J. Palmer
Original Assignee
Tropix, Inc.
Priority date (The priority date is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the date listed.)
Filing date
Publication date
Application filed by Tropix, Inc. filed Critical Tropix, Inc.
Priority to AU48244/00A priority Critical patent/AU4824400A/en
Publication of WO2000068810A1 publication Critical patent/WO2000068810A1/fr
Publication of WO2000068810A8 publication Critical patent/WO2000068810A8/fr
Publication of WO2000068810A9 publication Critical patent/WO2000068810A9/fr

Links

Classifications

    • G—PHYSICS
    • G06—COMPUTING; CALCULATING OR COUNTING
    • G06T—IMAGE DATA PROCESSING OR GENERATION, IN GENERAL
    • G06T11/00—2D [Two Dimensional] image generation
    • G06T11/20—Drawing from basic elements, e.g. lines or circles
    • G06T11/206—Drawing of charts or graphs

Definitions

  • chip-based arrays microplates and chip-based arrays are referred to as plates herein).
  • the plates used in such screening methods may have in excess of 400 wells per plate. Frequently, each well is inspected to determine the presence
  • reporter gene assays particularly limited, but include reporter gene assays, immunoassays, fingerprint assays, etc.
  • the invention also displays plate-wide statistics, such as signal-to-noise ratio and variability,
  • Figure 1 is a drawing of a prior art display screen from a high throughput screening
  • Figure 4 is a drawing of a display screen subsequent to the display screen of Figure 3.
  • Figure 5 is a drawing of a display screen subsequent to the display screen of Figure 4.
  • Figure 6 is a drawing of a display screen subsequent to the display screen of Figure 5.
  • Figure 7 is a drawing of a display screen subsequent to the display screen of Figure 6.
  • Figure 9 is a drawing of a display screen subsequent to the display screen of Figure 8.
  • Figure 10 is a drawing of a display screen subsequent to the display screen of Figure 9.
  • Figure 12 is a drawing of a display screen subsequent to the display screen of Figure 11.
  • the invention is believed to be particularly well suited to high
  • the invention may be used in any situation in which data is generated and collected in a two dimensional format, and is not
  • a source plate refers to a plate on which material is stored
  • an assay plate refers to a plate on which assays are run. It is a common practice,
  • master and daughter plates are often prepared with material from the source plates.
  • the source (and master and daughter where applicable) plate IDs are
  • a single source or assay plate may
  • control wells on assay plates typically measured relative to "control" wells on assay plates. It is customary for the first and last columns of wells (or some portion thereof) to include a low control and a high control.
  • the low control is a material which will completely inhibit a reaction, while the high control is
  • stimulation reactive than the material in the high control well
  • the signal to noise, or S/N is simply a ratio of the results from the high and low control wells. If the S/N for an assay plate is not sufficiently high, then the results
  • Figure 1 illustrates a display screen 100 from a prior-art data analysis program.
  • display 100 shows the results from a 96-well microplate; accordingly, the results for the assay
  • Each cell in columns 2-11 includes 2 values: the actual test data is presented on top and the sample number is presented below.
  • programs are compound-oriented. Such programs will display, for a single compound, the
  • Figure 2 illustrates the initial screen 200 presented to a user upon program start-up, which is
  • the screen 200 includes a password dialog box 210 for
  • filtering refers to selecting or de-selecting certain data for review and/or analysis: a
  • pressing button 291 connects the program to the
  • button 292 disconnects the system from the database and button 293 causes the
  • Thresholding is the division of data into a manageable number of categories; it is done to
  • a binary division e.g. good/bad
  • a quadripartite e.g. a quadripartite
  • thresholds may be set for "% Inhibition,” Compound Range Ratios (a measure of how much compound performance varies), Assay Plate Signal to Noise,
  • measures includes a plot of all values (all wells and all plates) of the respective measures for
  • Compound Range Ratios may be alternatively expressed in terms of a standard deviation.
  • FIG. 4 illustrates a quadripartite division.
  • a quadripartite division requires setting
  • thresholds are set by either typing the desired threshold in the colored threshold dialog boxes 430a-c associated with each of the windows 420a-d windows (which
  • a desired threshold may be determined in advance independently of the
  • threshold are chosen to be discrete; that is, the colors associated with each threshold are chosen such that they are easily distinguishable, and all data between two thresholds are presented in the same color.
  • % Stimulation is chosen as 10% (10%-38%); the second threshold is chosen as 38% (38%-
  • Table 510 lists each plate as well as the corresponding signal to noise and CV. Bad wells for each plate are also listed in the far right
  • Table 510 also includes an indication of the number of "hits" for
  • the height of the bar indicators represents the number of hits.
  • the screen 500 also allows the user to further filter the plates in light of the bar
  • Each plate may be selected (by clicking on it once; selected plates are surrounded by a black outline box 550) or de-selected (by clicking on it a second time).
  • the screen 500 provides a
  • FIG. 7 illustrates the "Assay Plate Patterns" screen 700. This screen displays four
  • the values are displayed in both numerical format and in a color- coded format.
  • the intensity of the colored dots in each cell is displayed in both numerical format and in a color- coded format.
  • the intensity of the colored dots in each cell is displayed in both numerical format and in a color- coded format.
  • This type of correlation in the data may be a "fluke,” but it also might be of
  • cell of the tables 81 Oa-n again represents a corresponding plate well.
  • a colored circle appears in each well in which a hit (relative to the thresholds defined at screen 400) has occurred.
  • circle will be solid for hits exhibiting inhibition, while the circle will be "hollow” for hits
  • Wells may be selected by left-clicking on the desired
  • This screen includes a table 610 in a format similar to that of the prior
  • Figure 9 illustrates the Compound List screen 900, which is presented in a 'pop-up'
  • the compound list screen 900 includes a table 910 listing each compound well selected from
  • Figure 10 illustrates the summary plate screen 1000.
  • the summary plate screen 1000 is
  • microplates are prepared for a single source plate which may have different compounds in respective source plate wells).
  • Each cell of plate table 101 Oa-n in screen 1000 indicates a
  • summary value such as average inhibition, maximum inhibition, minimum inhibition, etc.
  • a color-coded solid dot 1012 or hollow dot 1014 is placed in cells with a "%
  • Figure 11 illustrates the assay plate performance screen 1 100.
  • the purpose of the assay plate performance screen 1100 is to display plate- wide statistics so that poorly performing
  • the screen 1100 includes a plate summary box 1110 including four sub-boxes: a plate CV box 1110a, an unused box 1110b, a plate signal-to-noise box 1110c and a row signal-to-noise box 11 lOd. Each box is color coded, again corresponding to the
  • the row S/N box 11 lOd is filled in at locations corresponding to the
  • screen 600 is displayed to the user. As discussed above, this screen allows entire rows or even
  • the screen 1100 allows a user to quickly eliminate assay
  • Screen 1200 displays the results of multiple types of assays for multiple compounds (the
  • Each polar plot 121 Oa-n includes a number of vectors
  • each vector represents the result, such as
  • results may be expressed as average, maximum, minimum, or mean (or any other relationship) "% Inhibition.”
  • %Inhibition may also be displayed. Other variations on this display are also possible.
  • a program adapted for the display and analysis of high throughput screening data has
  • Aplates (plate) -window(i) 1 - ( (stdevData(i) * ZRange + ZRange * ZStDevLowli) ) / Abs (daverage(i) - ZLowAv erage(i) ) )
  • CVSumHighSquares CVSumHighSquares (cSTATALL) + ( (CVHighAverage (cSTATALL) - Aplates (plate) -Well ( rw, cl) .Raw) * _
  • CVSumHighSquares (cSTATGOOD) + ( (CVHighAverage (cSTATGOOD) - Aplates (plate ) -WelKrw, cl) -Raw) * _
  • CVSu LowSquares CVSumLowSquares (cSTATALL) + I (CVLowAverage (cSTATALL) - Aplates (plate) -Welllrw, cl) -Raw) * _
  • CVSumLowSquares (cSTATGOOD) + ( (CVLowAverage (cSTATGOOD) - Aplates (plate) -W ell (rw, cl) .Raw) * _
  • SNSumHighSquares SNSumHighSquares (cSTATALL) + ( (SNHighAverage(cSTATALL) - Aplates (plate) -Well I i rw, cl) .Raw) * _
  • SNSumHighSquares SNSumHighSquares (cSTATGOOD) + ( (SNHighAverage (cSTATGOOD) - Aplates (plate ) .Welllrw, cl) .Raw) * _
  • SNSumLowSquares SNSumLowSquares (cSTATGOOD) + ( (SNLowAverage (cSTATGOOD) - Aplates (plate) .W ell (rw, cl) .Raw) * _
  • ZSumHighSquares ZSumHighSquares (cSTATALL) + ( (ZHighAverage (cSTATALL) - Aplates (plate) -WelKrw, cl) -Raw) * _
  • ZSumHighSquares ZSumHighSquares (cSTATGOOD) + ( (ZHighAverage (cSTATGOOD) - Aplates (plate) .W ell(rw, cl) .Raw) * _
  • Aplates (plate) .Welllrw, cl).Inhib(i) 100 * (1 - (Aplates (plate) -Well (rw, cD.Raw - (InhLowli ) / InhLowCount ( i )) ) / (daverageli) - (InhLowli) / InhLowCount (i) )) )
  • InhSumHighSquares (cSTATGOOD) + ( (InhHighAverage (cSTATGOOD) - Aplates (pi ate) .WelKrw, cD.Raw) *
  • InhSumLowSquares (cSTATALL) + I (InhLowAverage (cSTATALL) - Aplates (plate) -Well( rw, cl) .Raw) * _
  • SNHighAverage (i) SNHigh(i) / SNHighCount (i)
  • CVHighAverage (i) cNODATA End If If ZHighCount (i) ⁇ > 0 Then
  • ZLowAverage (i ) ZLow(i) / ZLowCount(i)
  • CVHigh ( cSTATALL) CVHigh (cSTATALL) + Aplates (plate) .Well (rw, cD.Raw
  • InhHigh InhHigh (cSTATGOOD) + Aplates (plate ) .Well (rw, cD .
  • CVHigh (cSTATGOOD) CVHigh (cSTATGOOD) + Aplates (plate) -Well (rw, cD.Raw
  • CVLowl cSTATGOOD CVLow (cSTATGOOD) + Aplates (plate) -WelKrw, cD.Raw
  • Aplates (plate) .BadWells Aplates (plate) .BadWells & " " & ChrS (Asc ( “A” ) + rw) - cl t 1
  • Public Const cMin 0
  • Public Const cMax 1
  • Av g Data ( 2 ) As S ingle ' window ( 2, A S S ingle ⁇ of se p eration f or control values
  • Type AssaySummaryType for viewing summary performance across assays Name As String Averagelnhib As Double AverageStim As Double Maximum As Double Minimum As Double
  • SelectedCompounds IMyLevel + 1) SelectedCompounds IMyLevel + 1) - 1
  • FNu FreeFile Open fname For Output As FNum
  • OutLine OutLine & "Assay” & asy + 1 & tb & "Avg. Inhib” & tb & “Avg. Stim” & tb & "Max Inhib” & tb & “Max St im” & tb
  • OutLine OutLine & CompoundSummary (cmpd) .assay (asy) .Name & tb
  • OutLine OutLine & CompoundSummary (cmpd) .assay (asy) .Averagelnhib & tb
  • OutLine OutLine & CompoundSummary (cmpd) .assay (asy) .AverageStim & tb
  • OutLine OutLine & CompoundSummary(cmpd) .assay(asy) .Maximum & tb
  • OutLine OutLine & CompoundSummary (cmpd) .assay(asy) -Minimum & tb
  • Printer .CurrentY 2 * ( (Printer . fontsize 17) / (Printer.Height / Printer .ScaleHeight) ]
  • Printer. CurrentY Printer .CurrentY + ( (Printer . fontsize * 0.5) / (Printer .Height / Printer .ScaleHeight) )
  • hDC. fontsize (( (hDC.Height / hDC. ScaleHeight) / 20) * 0.33 + 0.1)
  • hDC.Line (px - 1.1, py - l.l)-(px + 1.1. py + 1.1), vbWhite, BF

Landscapes

  • Physics & Mathematics (AREA)
  • General Physics & Mathematics (AREA)
  • Engineering & Computer Science (AREA)
  • Theoretical Computer Science (AREA)
  • Investigating Or Analysing Biological Materials (AREA)

Abstract

L'invention concerne un procédé et un dispositif pour l'affichage de données, en vue de représenter les résultats d'un essai unique recouvrant plusieurs puits et plaques (1010), sur un écran unique (1000), selon un format préservant la relation spatiale entre un puits de plaque et la relation séquentielle entre les plaques. En outre, l'utilisateur peut afficher les résultats correspondant à plusieurs puits en format codé couleur (1012) correspondant à une division binaire (par exemple bon/mauvais) ou quadripartite (par exemple bon/marginalement bon/ marginalement mauvais/mauvais). On peut aussi afficher des statistiques à l'échelle d'une plaque, (du type rapport signal/bruit et variabilité) pour des plaques multiples sur un écran unique, de manière à pouvoir identifier aisément les plaques occasionnant des difficultés. De plus, il est possible de présenter à l'utilisateur un résumé des résultats puits par puits sur l'ensemble des composés/plaques, afin d'aider l'utilisateur à déceler des tendances générales, y compris la présence éventuelle d'erreurs mécaniques. Enfin, l'utilisateur a la possibilité de sélectionner ou de désélectionner des plaques et des essais, pour examen selon les formats susmentionnés.
PCT/US2000/012364 1999-05-07 2000-05-05 Logiciel d'affichage de donnees WO2000068810A1 (fr)

Priority Applications (1)

Application Number Priority Date Filing Date Title
AU48244/00A AU4824400A (en) 1999-05-07 2000-05-05 Data display software

Applications Claiming Priority (2)

Application Number Priority Date Filing Date Title
US13311399P 1999-05-07 1999-05-07
US60/133,113 1999-05-07

Publications (3)

Publication Number Publication Date
WO2000068810A1 true WO2000068810A1 (fr) 2000-11-16
WO2000068810A8 WO2000068810A8 (fr) 2001-03-01
WO2000068810A9 WO2000068810A9 (fr) 2001-11-22

Family

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Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2000/012364 WO2000068810A1 (fr) 1999-05-07 2000-05-05 Logiciel d'affichage de donnees

Country Status (2)

Country Link
AU (1) AU4824400A (fr)
WO (1) WO2000068810A1 (fr)

Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US5989835A (en) * 1997-02-27 1999-11-23 Cellomics, Inc. System for cell-based screening
US6023694A (en) * 1996-01-02 2000-02-08 Timeline, Inc. Data retrieval method and apparatus with multiple source capability

Patent Citations (2)

* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
US6023694A (en) * 1996-01-02 2000-02-08 Timeline, Inc. Data retrieval method and apparatus with multiple source capability
US5989835A (en) * 1997-02-27 1999-11-23 Cellomics, Inc. System for cell-based screening

Also Published As

Publication number Publication date
WO2000068810A8 (fr) 2001-03-01
AU4824400A (en) 2000-11-21
WO2000068810A9 (fr) 2001-11-22

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