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WO2000068810A9 - Logiciel d'affichage de donnees - Google Patents

Logiciel d'affichage de donnees

Info

Publication number
WO2000068810A9
WO2000068810A9 PCT/US2000/012364 US0012364W WO0068810A9 WO 2000068810 A9 WO2000068810 A9 WO 2000068810A9 US 0012364 W US0012364 W US 0012364W WO 0068810 A9 WO0068810 A9 WO 0068810A9
Authority
WO
WIPO (PCT)
Prior art keywords
assay
aplates
dim
hdc
pit
Prior art date
Legal status (The legal status 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 status listed.)
Ceased
Application number
PCT/US2000/012364
Other languages
English (en)
Other versions
WO2000068810A1 (fr
WO2000068810A8 (fr
Inventor
Neil Carlson
Michelle A J Palmer
Current Assignee (The listed assignees may be inaccurate. Google has not performed a legal analysis and makes no representation or warranty as to the accuracy of the list.)
Tropix Inc
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
Anticipated expiration legal-status Critical
Publication of WO2000068810A9 publication Critical patent/WO2000068810A9/fr
Ceased legal-status Critical Current

Links

Classifications

    • G06T11/26—

Definitions

  • chip-based arrays microplates and chip-based arrays are referred to as plates herein).
  • microplates also known as microplates, or similarly prepared sequences of small cells
  • reaction chambers that constitute reaction chambers is the method of choice for a wide variety of
  • 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
  • a particular signal such as a chemiluminescent, colorometric, agglutination or
  • reporter gene assays particularly limited, but include reporter gene assays, immunoassays, fingerprint assays, etc.
  • HTS technology involves preparing the mixture of sample and
  • the present invention meets the aforementioned need to a great extent by providing a method and apparatus for displaying data in a form that allows a user to rapidly review the
  • the invention accomplishes this through the presentation of results from a single assay across multiple wells and plates on a single screen in a format that preserves the
  • the invention also provides the user with the ability to
  • quadripartite e.g. good/marginally good/marginally bad/bad division.
  • the invention also displays plate-wide statistics, such as signal-to-noise ratio and variability,
  • the invention provides the user with the
  • Figure 1 is a drawing of a prior art display screen from a high throughput screening
  • Figure 2 is a drawing of an initial display screen from a high throughput screening data analysis program according to one embodiment of the present invention.
  • Figure 3 is a drawing of a display screen subsequent to the display screen of Figure 2.
  • 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 8 is a drawing of a display screen subsequent to the display screen of Figure 7.
  • 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 11 is a drawing of a display screen subsequent to the display screen of Figure 10.
  • 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
  • the low control is a material which will completely inhibit a reaction
  • the high control is
  • stimulation reactive than the material in the high control well
  • 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
  • CD4 identified as CD4 for each well are presented in a well table 110 with 12 columns and 8 rows of
  • Each cell in columns 2-11 includes 2 values: the actual test data is presented on top and the sample number is presented below.
  • the table 120 includes the CN (a measure of variablility), averages
  • the signal-to-noise value is 1596.50 to
  • 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
  • selection box 270 allows
  • pressing button 291 connects the program to the
  • button 292 disconnects the system from the database and button 293 causes the
  • the table 310 lists the available assays 320a-n as well as the available plate
  • Plates may be further filtered by being selected (or de-selected) at this screen 300. Once the desired plates have been selected at the previous two screens (200, 300), 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
  • the data that may be thresholded includes data relative to single wells as well as to
  • 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 may be desirable when 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
  • % Stimulation is chosen as 10% (10%-38%); the second threshold is chosen as 38% (38%-
  • thresholds are the equivalent to the "% Inhibition” thresholds but in the opposite direction.
  • Table 510 lists each plate as well as the
  • Table 510 also includes an indication of the number of "hits" for
  • Hits are wells that have surpassed at least one of the thresholds chosen in screen 400 for the well performance
  • the table 510 includes separate bar indicators for
  • the height of the bar indicators represents the number of hits.
  • the Range Limits box 520 includes Low, Medium and High dialog
  • the bar indicators 512 provide a quick look at
  • 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
  • the screen 500 provides a quick and efficient way for the data to be presented. This should be contrasted with prior art
  • 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.
  • the format of screen 700 allows subtle trends in the data, which might escape notice in
  • This type of correlation in the data may be a "fluke,” but it also might be of
  • Figure 8 illustrates the "Assay Plates" screen 800.
  • the assay plates screen 800 displays
  • each table 810a-n representing the results of an assay plate.
  • circle will be solid for hits exhibiting inhibition, while the circle will be "hollow” for hits
  • Screen 800 also provides the user with the ability to select individual wells. Wells are
  • Wells may be selected by left-clicking on the desired
  • inhibition i.e. pass the highest threshold
  • select all cells that exhibit medium inhibition only select all cells that exhibit the lowest inhibition only, etc.
  • This screen includes a table 610 in a format similar to that of the prior
  • This screen also allows individual wells to be marked as bad (by clicking on the
  • This screen also allows entire rows (by clicking on the letter in the left-hand side
  • 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
  • Each cell of plate table lOlOa-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 is the assay plate performance screen 1 100.
  • 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 CN box 1110a, an unused box 1110b, a plate signal-to-noise box 1110c
  • Each box is color coded, again corresponding to the
  • the row S/ ⁇ 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 1210a-n includes a number of vectors
  • results for different assays are at different angles and are color-coded to match the assay names 1220 displayed near the
  • each vector represents the result, such as
  • results may be expressed as average, maximum, minimum, or mean (or any other relationship) “% Inhibition.”
  • % Stimulation may be expressed as average, maximum, minimum, or mean (or any other relationship)
  • a program adapted for the display and analysis of high throughput screening data has
  • the display program presents data in a format that facilitates rapid analysis.
  • Aplates (plate) .windowti) cNODATA End If CO End If
  • CVStDevHigh(i) Sqr (CVSumHighSquares (i) ) / Sqr (CVHighCount(i) - 1) Else
  • CVStDevHigh(i) cNODATA End If If CVLowCount(i) > 1 Then
  • ZStDevLowli Sqr (ZSumLowSquares (i) ) / Sqr(ZLowCoun (i) - 1)
  • ZSumLowSquares ZSumLowSquares (cSTATALL) + ( IZLowAverage (cSTATALL) - Aplates (plate) .Well (rw, cl ) .Raw) *
  • InhStDevHigh(i) Sqr(InhSumHighSquares (i) ) / Sqr (InhHighCount (i) - 1)
  • InhStDevLow(i) Sqr (InhSumLowSquares(i) ) / Sqr (InhLowCount (i) - 1)
  • SNStDevLow(i) Sqr (SNSu LowSquares (i) ) / Sqr (SNLowCount (i) - 1) CO Aplates (plate) .
  • Control (i, cLOW) SNLow(i) / SNLowCount (i)
  • CVSumHighSquares CVSumHighSquares (cSTATGOOD) + UCVHighAverage (cSTATGOOD) - Aplates (plate)
  • CVSumLowSquares (cSTATGOOD) + ( (CVLowAverage (cSTATGOOD) - Aplates (plate) .W ell (rw, cl) .Raw) * _
  • SNSumLowSquares (cSTATGOOD) + ( (SNLowAverage (cSTATGOOD) - Aplates (plate) .W ell (rw, cl) .Raw) * _ CO (SNLowAverage (cSTATGOOD) - Aplates (plate) .WelKrw, cD.Raw))
  • ZSumHighSquares ( cSTATALL ) ZSumHighSquares (cSTATALL) + ( (ZHighAverage (cSTATALL) - Aplates (plate) .Well (rw cl) .Raw) * _ m (ZHighAverage (cSTATALL) - Aplates (plate) .WelKrw, cD.Raw)) 'If Aplates (plate) .WelKrw, cl) .Good Then
  • ZSumHighSquares ( cSTATGOOD) + ( (ZHighAverage (cSTATGOOD) - Aplates (plate) .W m elKrw, cl) .Raw) * _ r ⁇ (ZHighAverage (cSTATGOOD) - Aplates (plate) .WelKrw, cD.Raw))
  • InhSumLowSquares InhSumLowSquares (cSTATALL) + ( (InhLowAverage (cSTATALL) - Aplates (plate) .Well( rw, cl) .Raw) * _
  • InhHighAverage (i) InhHigh(i) / InhHighCount (i)
  • InhHighAverage (i) cNODATA End If If SNHighCount(i) ⁇ > 0 Then
  • InhHigh InhHigh (cSTATALL) ⁇ Aplates (plate) .WelKrw, cD.Raw
  • InhLow(cSTATALL) InhLow (cSTATALL) + Aplates (plate) .WelKrw, cD.Raw
  • InhHigh InhHigh (cSTATGOOD) + Aplates (plate) .WelKrw, cl) .Raw
  • InhLow(cSTATGOOD) InhLow(cSTATGOOD) + Aplates (plate) .WelKrw, cD.Raw
  • ZLow(cSTATGOOD) ZLow(cSTATGOOD) ⁇ Aplates (plate) .WelKrw, cl) .Raw
  • Aplates (plate) .BadWells Aplates (plate) .BadWells t • " 6 ChrS (AscCA”) ⁇ rw) & cl + 1
  • i) 0
  • CVStDevHigh(i) 0
  • CVStDevLowli) 0
  • Hm i> strSQL "insert into Tropix_Compound_Svuranary (COMPOUND_ID, splate_id, ASSAY_CODE, AVERAGE_INHIBITION, " (.
  • Public Const ALLALL 0
  • Public Const ALLGOOD 1
  • Public Const SELECTEDALL 2
  • Public Const SELECTEDGOOD 3 c 00 'Used on Splateviews to determine which statistic should be used for displaying Inhibition
  • C ⁇ Public Const cAVERAGE 0
  • Public Const cLIMITINHIB 0
  • Public Const cLIMITCOMPOUNDCV 1
  • Public Const cLIMITPLATESN 2
  • Public Const cLIMITPLATECV 3
  • Threshold Val (txtThreshold.Text)
  • I picKey.DrawWidth 4 m m picKey.Line (ke .keypts (Index) . ⁇ tX(cMax) , key. eypts (Index) .ptY(cMax) )- (key.keyends (Index) .ptX(cMin) , key.keyends! Index) .ptY(cMin)), vbWhite
  • SelectedCompounds (MyLevel + 1) SelectedCompounds (MyLevel + 1) - 1 End If Debug. Print lx & " " I ly t " " St CompoundSuiranary(Sv_mnaryMatrix(MyLevel) .Location !lx, ly) .Index) .CompoundName & _
  • CompoundSummaryIndex (CompoundSummary (SummaryMatrix (MyLevel) .Locationdx, ly) .Index) .CompoundName)

Landscapes

  • 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 Ceased 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 WO2000068810A1 (fr) 2000-11-16
WO2000068810A8 WO2000068810A8 (fr) 2001-03-01
WO2000068810A9 true WO2000068810A9 (fr) 2001-11-22

Family

ID=22457079

Family Applications (1)

Application Number Title Priority Date Filing Date
PCT/US2000/012364 Ceased 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)

Family Cites Families (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
WO2000068810A1 (fr) 2000-11-16
WO2000068810A8 (fr) 2001-03-01
AU4824400A (en) 2000-11-21

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