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Countess

™

II Automated Cell Counter User Guide

43

Appendix D: CSV file format

CSV file format, explained

Overview

A comma-separated values (CSV) file stores tabular data (numbers and text) in plain-
text form. Plain text means that the file is a sequence of characters, with no data that
has to be interpreted as binary numbers. A CSV file can be opened with any third

party software or spreadsheet program. The table below describes the categories of
the Countess

™

II data saved as a CSV file and opened with a spreadsheet program.

Category

Column

Name

Description

General

A

Number

Sequential sample run number

B

File Name

Name of file

C

Date & Time

Date and time of sample run

D

Mode

BF-Brightfield

Trypan

Blue/Brightfield

E

Total Concentration

Concentration of the entire sample

F

Total cells counted

Total number of cells counted in the sample

G

Live concentration

Concentration of just the “live” portion of the sample

H

Live cells counted

Total number of “live” cells counted

I

Dead concentration

Concentration of just the “dead” portion of the sample

J

Dead cells counted

Total number of “dead” cells counted

K

Viability (%)

Percent viability of the sample based on trypan blue staining

L

Average size (um)

Average cell size in microns

General Details

X

Focus value

Focal position number

Y

BF Light intensity

Brightfield light intensity value from 0-100%

Trypan
Blue/Brightfield

Count
Parameters

Z

Live Size min

Minimum size of “live” cells in microns

AA

Live Size max

Maximum size of “live” cells in microns

AB

Live Brightness min

“Live” adjustment slider value for minimum brightness

AC

Live Brightness max

“Live” adjustment slider value for maximum brightness

AD

Live Circularity

“Live” adjustment slider value for circularity

AE

Dead Size min

Minimum size of “dead” cells in microns

AF

Dead Size max

Maximum size of “dead” cells in microns

AG

Dead Bright min

“Dead” adjustment slider value for minimum brightness

AH

Dead Bright max

“Dead” adjustment slider value for maximum brightness

AI

Dead Circ

“Dead” adjustment slider value for circularity

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Содержание AMQAX1000

Страница 1: ...For Research Use Only Not for use in diagnostic procedures Countess II Automated Cell Counter Catalog Number AMQAX1000 Publication Number MAN0014293 Revision B 0...

Страница 2: ...n B 0 30 June 2017 Add info about edited profile indicator save profile from results screen dilution calculator and reports A 0 01 September 2015 New user guide Important Licensing Information These p...

Страница 3: ...d 19 Graph count results 20 Gate count results 21 Save as new protocol 22 5 Dilution calculator 24 Calculate dilution 24 6 Save results 27 Save count results 27 Report 30 7 Instrument settings 31 Over...

Страница 4: ...fety conventions used in this document 44 Symbols on instruments 45 Safety labels on instruments 47 General instrument safety 48 Chemical safety 49 Chemical waste safety 50 Electrical safety 51 Biolog...

Страница 5: ...otes and tutorials Text and keyboard conventions Text and keyboard conventions used in this user guide are listed below For safety alert words and symbols used in this document see page 6 Convention U...

Страница 6: ...n that if not avoided may result in minor or moderate injury It may also be used to alert against unsafe practices WARNING Indicates a potentially hazardous situation that if not avoided could result...

Страница 7: ...ly The cells to be counted are loaded into the instrument in disposable Countess Cell Counting Chamber Slides page 15 Each chamber slide contains two enclosed chambers to hold the sample to allow you...

Страница 8: ...control Note The USB ports located in the front and the back of the instrument function the same However the first USB drive connected will be the preferred saving location and both USB drives cannot...

Страница 9: ...ty range 80 non condensing IMPORTANT Do not position the instrument so that it is difficult to turn off the main power switch located on the back of the instrument see page 8 In case of an instrument...

Страница 10: ...y you can change or add a profile Step 3 below or change instrument settings Step 4 below 3 To change the current profile or to add a new profile to the instrument press the Profiles button in the upp...

Страница 11: ...the Home Capture Results Advanced or Adjust screens The Auto Lighting function and count parameters are set in the Edit profile screen page 12 The Default profile contains default count settings and c...

Страница 12: ...s you move the slider up the algorithm includes the brighter objects in the count As you move the slider down only the dimmest of objects are counted brighter objects dimmer objects Circularity As you...

Страница 13: ...r left corner of the screen to navigate to the Profiles screen 2 To add or edit a new profile select an empty or an existing profile and then press Edit The Edit screen for the selected profile opens...

Страница 14: ...screen To return to the Edit profile screen without saving the name press the close button 9 Press Save to save the new profile and then press Close in the confirmation screen to return to the Profile...

Страница 15: ...f your cell suspension to 10 L of 0 4 trypan blue stain Mix the sample mixture well by pipetting up and down a few times 2 Gently pipet 10 L of the trypan blue stained sample into the half moon shaped...

Страница 16: ...ge 13 4 Optional If desired press the Focus button and then use the Focus slider to manually bring your sample into focus see Note below If needed Zoom in on the image while adjusting the focus Note T...

Страница 17: ...ess or circularity first press More to open the Advanced screen and then press Adjust to navigate to the Adjust screen page 21 Note You can save the changes you make to the size brightness or circular...

Страница 18: ...calculations total concentration percentage and concentration of live and dead cells Note When performing brightfield BF cell counts and cell viability assays the counting algorithm assumes that you...

Страница 19: ...On the Results screen click More The Advanced screen opens 2 To identify the cells that are included in the count as live press the Live button Live cells will be circled in green on the screen To id...

Страница 20: ...d or dead cells based on cell size press the Graph button 2 To view the distribution of only the live or dead cells check the corresponding Live or Dead check box on the graph The graph will automatic...

Страница 21: ...size as you gate the count results see page 20 5 Select the channel Live or Dead you wish to gate 6 Using the size brightness and circularity sliders adjust the count parameters Note For a descriptio...

Страница 22: ...button which allows you to save the changes to the current profile or as a separate protocol 2 To save the changes to the count parameters to the current profile or to create a new profile with the ed...

Страница 23: ...ains empty 5 To change the name of the selected profile press the Profile name text box and enter the desired name using the alpha numeric keypad as described on page 14 6 Optional If desired make add...

Страница 24: ...ults Calculate dilution 1 On the Results screen press Dilution Calculator to open the Dilution calculator screen 2 Press the cell type button located to the right of the current concentration then sel...

Страница 25: ...he desired concentration By default the exponent is n 1 where n the exponent value of the current count The maximum selectable exponent is same exponent value as the current count Pressing an exponent...

Страница 26: ...l solution and buffer needed If you enter a combination of values that is not valid e g desired concentration is greater than the current concentration the results line remains on or return to the bla...

Страница 27: ...ts with any third party software or spreadsheet program For more information on the CSV file format see Appendix D CSV file format page 43 Report Saves a printer friendly report of the results graph s...

Страница 28: ...l key To return to the alpha numeric keypad press ABC 5 Press Enter to save the name and return to the Save screen To return to the Save screen without saving the name press the close button 6 Select...

Страница 29: ...te Data can only be saved as a CSV file 8 Press to select the desired file type Available options are JPEG BMP PNG and TIFF After you make your selection the instrument returns to the Save screen To r...

Страница 30: ...of the Report contains a table with the results as displayed on the Countess Results screen showing the concentration of the sample and the percentage and number for the total Live and Dead channels...

Страница 31: ...Home page page 10 In the Instrument Settings screen you can perform software update page 32 set the date and time page 33 Note Although the Change Light Cube button is visible on the Instrument Settin...

Страница 32: ...are update file Update the Countess II II FL software 1 Go to www thermofisher com countessupdate and download the latest Countess II II FL software version to your desktop Note The software update fi...

Страница 33: ...ress Date Time on the Instrument Settings menu to open the Date Time screen 3 Select the Date format you wish to use 4 Press any Date text box MM DD or YYYY to open the Edit Date keypad 5 Using the ke...

Страница 34: ...the keypad enter the time into Hours and Minutes text boxes pressing Enter after each entry 10 After you are finished entering the time press the close button to return to the Date Time screen 11 If y...

Страница 35: ...41 Damage due to an incompatible power adaptor is not covered by warranty CAUTION Never disassemble or service the instrument yourself Do not remove any covers or parts that require the use of a tool...

Страница 36: ...that the cleaning solution does not enter the power button the power inlet the slide port or the USB ports Never pour or spray any liquids directly on the instrument to avoid electrical shock when th...

Страница 37: ...ghtfield focus by adjusting it manually and then setting the nominal focus This allows the auto focus function to have a set point from which to focus on the cells in subsequent samples Set nominal fo...

Страница 38: ...or the plus and minus buttons to refine the brightfield focus Note If needed Zoom in on the image to adjust focus or lighting 7 After finding the optimal focus press Set to set the nominal focus Once...

Страница 39: ...to include all of the cells in the count page 20 After including all of the cells in the count you can narrow the count criteria if you wish to exclude cells of a certain size or certain brightness Wh...

Страница 40: ...d look dark on the screen the Countess II will count them as dead cells If cells are well focused have bright centers and are being counted as dead confirm that they are within the appropriate cell si...

Страница 41: ...nments i e non residential or light industrial Pollution degree 2 Operating temperature 4 32 C 40 90 F Operating humidity 80 non condensing Technical specifications Processing time 15 seconds Sample c...

Страница 42: ...s II Automated Cell Counter and are available separately from Thermo Fisher Scientific For more information visit www thermofisher com or contact Technical Support page 54 Product Quantity Cat no Coun...

Страница 43: ...le H Live cells counted Total number of live cells counted I Dead concentration Concentration of just the dead portion of the sample J Dead cells counted Total number of dead cells counted K Viability...

Страница 44: ...potentially hazardous situation that if not avoided may result in minor or moderate injury It may also be used to alert against unsafe practices WARNING Indicates a potentially hazardous situation tha...

Страница 45: ...Hazardous voltage may be present if this switch is on standby Indicates the On Off position of a push push main power switch Indicates a terminal that may be connected to the signal ground reference...

Страница 46: ...Indicates the presence of a laser inside the instrument and to proceed with appropriate caution Indicates the presence of moving parts and to proceed with appropriate caution Indicates the presence of...

Страница 47: ...l limination des d chets DANGER High voltage DANGER Haute tension WARNING To reduce the chance of electrical shock do not remove covers that require tool access No user serviceable parts are inside R...

Страница 48: ...o not install the instrument on a slant or a place prone to vibrations which induces the risk of instrument malfunction or damage of the instrument Never insert any objects into the air vents of the i...

Страница 49: ...minimize the hazards of chemicals Read and understand the Safety Data Sheets SDSs provided by the chemical manufacturer before you store handle or work with any chemicals or hazardous materials See Do...

Страница 50: ...ive clothing For additional safety guidelines consult the SDS Minimize the inhalation of chemicals Do not leave chemical containers open Use only with adequate ventilation for example fume hood For ad...

Страница 51: ...e replace fuses only with fuses of the type and rating specified for the instrument Power DANGER ELECTRICAL HAZARD Grounding circuit continuity is vital for the safe operation of equipment Never opera...

Страница 52: ...Porter des lunettes de protection appropri des v tements et des gants In the U S U S Department of Health and Human Services guidelines published in Biosafety in Microbiological and Biomedical Labora...

Страница 53: ...rom CSA CSA America ANSI ASME ASSE ASTM NSF and UL European safety and EMC standards The CE Mark symbolizes that the product conforms to all applicable European Community provisions for which this mar...

Страница 54: ...oks certificates of analysis citations and other product support documents Obtain information about customer training Download software updates and patches 85BSafety Data Sheets SDS Safety Data Sheets...

Страница 55: ...For support visit thermofisher com support 30 June 2017...

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