Nikon

Tabs Container

id	Instrument Tabs
title	Nikon Ti2-E
direction	horizontal

Tabs Page

id	Description
title	Description

Nikon

TE2000-E inverted microscope

Bombardier Building, Room 3132

Usage Price Advanced Microscope Tier 1

Instrument awarded to Dr. Steve Michnick by

the

the Canadian Foundation for Innovation (CFI)

Advanced Microscope Tier 1 usage price

Applications

Transmitted light
Phase Contrast
Interference Contrast (DIC)
Fluorescence
Widefield imaging

Transmitted light, Bright-field, Phase Contrast

Fluorescence

Live imaging
Time-lapse imaging

Image Added Image Added

Tabs Container

title	Nikon TE2000-E
direction	horizontal

Tabs Page

title	Description

Light sources

Halogen lamp for transmitted light
X-Cite exacte for fluorescence

Expand

Objectives

title	Complete specifications

Emission (nm)	Nominal power (mW)

Objectives

4x/

4x/

0.1 Air
10x/0.30 Ph1 Air

Ph1

20x/0.45 Ph1 Air

Ph1

40x/0.95 Air
60x/1.4 Ph3 Oil

Ph3

100x/1.45 Oil

Expand

title

Objectives complete

Complete specifications

Position	Name	Brand	Full name	Identifier	Magnification	Numerical aperture	Immersion	Working distance (mm)	Transmittance (% [nm])

Techniques

Applications	Cover glass thickness (mm)
1	4x/0.10 Air	Nikon	4x/0.1 Plan	MRL00042	4x	0.1	Air	30	>80% [400-900]	BF, Fluo	-
2	10x/0.30

Air

Ph1 Aur	Nikon	10x/0.30 Plan Fluor Ph1 DL	MRH20101 MRH20105	10x	0.3	Air	15.2	>80% [440-700]	BF, PhC, Fluo	1.2 !
3	20x/0.45 Ph1 Air

Ph1

Nikon

20x/0.45 Plan Fluor ELWD Ph1 ADL

MRH48230
MRH48220

7

20x	0.45	Air	7.4	>80% [350-870]	BF, PhC, Fluo	0-2
4	40x/0.95 Air	Nikon	40x/0.95 Plan Apo DIC M/N2	MRD00400 MRD70470	40x	0.95	Air	0.14	>80% [440-760]	BF, Fluo	0.11-0.23
5	60x/1.4 Ph3 Oil

Ph3

	Nikon	60x/1.4 Plan Apo Ph3 DM	MRD31600	60x	1.4	Oil	0.21		BF, PhC, Fluo	0.17
6	100x/1.45 Oil	Nikon	100x/1.45 Plan Apo Lambda OFN25 DIC N2	MRD01905 MRD71970	100x	1.45	Oil	0.13	>80% [460-720]	BF, Fluo	0.17

Also available

PositionNameBrandFull nameIdentifierWorking distance (mm)Transmittance
(% [nm])TechniquesCover glass thickness (mm)

-

40x/0.60 Ph2 Air

Nikon

Plan Fluor 40x/0.60 Ph2

-40x/0.60 Air Ph2NikonPlan Fluor 40x/0.60 Ph2

DIC M ELWD 0-2	MRH48430	40x	0.6	Air	2.7-3.7	>80% [350-850]	BF, PhC, Fluo	0-2
-	40x/0.60 Air	Nikon	S Plan Fluor 40x/0.6 ELWD DIC N1	MRH08430	40x

2.8

0.6	Air	2.8-3.6	>80% [350-850]	BF, Fluo	0-2
-	40x/0.90 Air	Nikon	S Fluor 40x/0.90 DIC M/N2	NA	40x	0.9	Air	0.3	NA	BF, Fluo	0.11-0.23
-	60x/0.70 Air	Nikon	Plan Fluor 60x/0.70 ELWD DIC M/N1	MRH08630	40x	0.7	Air	1.5-2.1	>80% [380-880]	BF, Fluo	0.5-1.5
-	60xA/1.40 Oil	Nikon	Plan Apo 60xA/1.40 Oil DIC H	MRD71670	60x	1.4	Oil	0.21	>80% [480-700]	BF, Fluo	0.17
-	60x/1.

4

40 Oil	Nikon	Plan Apo VC 60x/1.40 Oil DIC N2	MRD71670	60x	1.4	Oil	0.13	>80% [480-700]	BF, Fluo	0.17
-	100x/0.85 Air	Nikon	L Plan 100x/0.85 ODN 25	MUE35900	100x	0.85	Air	0.85			0-0.7
-	100x/1.

4

40 Oil

Nikon

Plan Apo 100x/1.4 Oil DIC H

MRD71970

100x

1.4

Oil

0.13

>80% [480-720]

BF, Fluo

0.17

Filters

BF: Bright-field
PhC: Phase Contrast
DIC: Differential Interference Contrast
Fluo: Fluorescence

Filters

Dichroic DAPI\FITC\TRITC
Dichroic CFP\YFP\Cy5
Dichroic CFP\YFP\mCherry
DAPI
Cy3n
Cy5.5

Also available

CFP
FITC
YFP
Cy3.5
mCherry
Cy5

Expand

title

Filters complete

Complete specifications

Filter cubes

Position	Name	Brand

ID

Identifier	Excitation

Filter

	Dichroic

mirror

	Emission

Filter

	Comments
1	Dichroic DAPI\FITC\TRITC	Chroma	86013 v2		86013bs		To be used in combination with excitation and emission filters
2	Dichroic CFP\YFP\Cy5	Chroma	86008 v2		86008bs		To be used in combination with excitation and emission filters
3	Dichroic CFP\YFP\mCherry	Chroma	89006 ET		69008bs		To be used in combination with excitation and emission filters
4	DAPI	Chroma	31000 v2	AT350/50x	400dclp	D460/50m
5	Cy3n	Chroma	SP102 v1	HQ546/11x	Q557lp	HQ567/15m
6	Cy5.5	Chroma	41022	HQ665/45x	Q695lp	HQ725/50m

Excitation filters

-

Position

eCFP

Name

Chroma

BrandIDExcitation FilterMatching dichroic mirrorMatching Emission FilterComments

49001 ET	ET436/20x	T455lp	ET480/40m
-	cGFP	Chroma	31044 v2	D436/20x	455dclp	D480/40m
-	FITC	Chroma	41001	HQ480/40x	Q505lp	HQ535/50m
-	YFP	Chroma	49003 ET	ET500/20x	T515lp	ET535/30m
-	Cy3.5	Chroma	SP103 v1	HQ581/10x	Q593lp	HQ617/40m
-	mCherry	Chroma	49008 ET	ET560/40x	T585lpxr	ET630/75m
-	Cy5	Chroma	49006 ET	ET620/60x	T660lpxr	ET700/75m

Excitation

1DAPIChroma86013 v2 Exc 1 AT350/50x

86013bs

S457/17m2

CFP

Chroma86008 v2 Exc 1

S430/25x

86008bs
69008bs

S465/30m3FITCChroma86013 v2 Exc 2

S484/15x

86013bs

S517/30m

4

YFP

Chroma86008 v2 Exc 2

S510/20x

86008bs
69008bs

S550/50m

5TRITCChroma86013 v2 Exc 3 S555/25x

86013bs

S605/40m

6

mCherry

Chroma89006 ET Exc 3

ET572/35x

69008bs

ET632/60m

7

Cy5

Chroma86008 v2 Exc 3

S622/36x

86008bs

S700/75m8

Empty

Emission

filters

Position	Name	Brand

ID

Identifier

Matching

Excitation

Filter

Matching dichroic mirror

Dichroic	Emission

Filter

Comments

1

DAPI

Chroma

86013 v2

Em

Exc 1	AT350/50x	86013bs	S457/17m
2	CFP	Chroma	86008 v2

Em

Exc 1	S430/25x	86008bs 69008bs	S465/30m
3	FITC	Chroma	86013 v2

Em

Exc 2	S484/15x	86013bs	S517/30m
4	YFP

Semrock

Chroma

S510/20x

S550/50m
5	TRITC	Chroma	86013 v2

Em

Exc 3	S555/25x	86013bs	S605/40m
6	mCherry

Semrock

Chroma

ET572/35x

ET632/60m
7	Cy5	Chroma	86008 v2

Em

Exc 3	S622/36x	86008bs	S700/75m
8	Empty

9

Shutter

10

Shutter

Also available

Emission filters

Position	Name	Brand

ID

Identifier	Excitation

Filter

	Dichroic

mirror

	Emission

Filter

	Comments

-

2

eCFP-mCherryChroma

-Cy5Chroma

CFP

Chroma

-cGFPChroma

-FITCChroma

-YFPChroma

-Cy3.5Chroma

86008 v2 Em 1	S430/25x	86008bs 69008bs	S465/30m
3	FITC	Chroma	86013 v2 Em 2	S484/15x	86013bs	S517/30m
4	YFP	Semrock	FF01-550/49-26	S510/20x	86008bs 69008bs	F01-550/49-25
5	TRITC	Chroma	86013 v2 Em 3	S555/25x	86013bs	S605/40m
6	mCherry	Semrock	FF01-641/75-25	ET572/35x	69008bs	FF01-641/75-25
7	Cy5	Chroma	86008 v2 Em 3	S622/36x	86008bs	S700/75m
8	Empty
9	Shutter
10	Shutter

Detector

Hamamatsu ORCA Flash v2 CMOS
- Monochrome Camera

2048x2048 pixels, 16-bit,

- 2048 x 2048 pixels
- Pixel 6.5 um x 6.5 um
- 30 images/s at full frame (100 images/s at full frame with camera link connector)

Serial 002162

- Dynamic range 1 : 18000 16-bit
- Spectral response >40% between 400-850nm, Max 80% at 550nm
  Image Added

Tabs Page

Tabs PageidUser Guide

title	User Guide

UI Expand

expanded	true
title	Startup

Turn

If not already done, turn on the computer (#1) and use your UdeM credentials to log in to Windows
Remove the cover from the microscope
Turn on the X-Cite exacte

light

light source (#2)
Turn on the microscope power bar (#3)

Use your UdeM credentials to log in to Windows

The first time you use the instrument, you need

When using the software for the first time, it is necessary to import the microscope-specific settings

into

before launching the acquisition software.

To do this follow the instructions First use protocol

Please refer to the First Use section below for instructions.
Start

the software

NIS-Elements

UI Expand

title

Shutdown

Save your data
If the oil objective was used, clean it with lens cleaner and lens paper (not Kimwipes)
Select the lowest magnification objective
Close the software NIS
Transfer your data to the D: drive (Data Storage) or to your external drive and delete it from the local C: drive
Turn off the computer
Turn off the X-Cite exacte light (#2)
Turn off the microscope power bar (#3)
Cover the microscope

First use

When using the acquisition software for the first time, it is necessary to import the microscope-specific parameters into the software. This procedure is usually carried out during the training session.However, it is also possible to use it to reset the software if it is not displayed correctly, for example.

Note
Please note, this procedure will delete all your experiment protocols and restore the software to its original settings.

If open, close NIS-Elements and wait until it is completely closed
On the Desktop open the folder Softwares
Open NIS Settings Utility
Click on the Import tab
Click on Browse
Navigate to your Documents
Select the file NIS Settings for Nikon TE2000E.bin
Click Select
Select all items
Click Import
Click OK
Close NIS Settings Utility
You can then open NIS-Elements

UI Expand

title	Loading samples

This procedure puts the microscope in a safe configuration to load your sample. At the end the microscope will be ready for acquisition.

UI Expand

title	First focus

If not already done, in NIS-Elements select 4x to select the 4x objective

Info

The 4x objective is the safest because it has the longest working distance (30mm). The sample will appear perfectly sharp long before the lens approaches it. It is recommended to always first focus with the safest lens. The objectives are parafocal, focusing with the safest objective will then allow you to easily find your sample with another objective. The 10x objective is also safe because its working distance is 15.2 mm.

If not done already, press Escape to lower the objective to the lowest position
Place the test slide on the microscope stage with the coverslip toward the objective
Note
title Important
Always use the test slide to perform the first focus.
If necessary, move the stage so that the sample is centered on the objective
In NIS-Elements, select the optical configuration BF vis or the desired fluorescence (DAPI vis, ...) to activate the configuration
Adjust the focus with the main dial while looking through the eyepieces until the image is perfectly sharp
Note
The focus can be found at Z = mm). The Z value can be found in the NIS Software XYZ Position tab.
In NIS-Elements, select the optical configuration Off to turn off the illumination

UI Expand

title	Seconday focus

Warning

title	Important

First focus with the safest objective before selecting another lens and continuing with secondary focus.

UI Expand

title	Focusing with air objectives

In NIS-Elements, click 10x, 20x or 40x to select the desired objective
Info
The 40x objective is the best Air objective because it has the greatest number of optical corrections (Plan Apochromat) and the largest numerical aperture (0.95).
In NIS-Elements, select the optical configuration BF vis or the desired fluorescence (DAPI vis, ...) to activate the configuration
Adjust the focus with the precision dial while looking through the eyepieces until the image is perfectly sharp
Select the optical configuration Off to turn off the illumination
Your sample is ready for acquisition!

UI Expand

title	Focusing with oil objectives

After performing the first focus, in NIS-Elements:

In NIS, click Escape, to lower the objectives
Click 60x Oil or 100x Oil to select the desired objective.
Info
The 100x objective has the greatest resolution (NA 1.45 vs 1.4)
Place a single drop of oil on the objective
In NIS-Elements, click again Escape to return the objective to its original position
Select the optical configuration BF vis or the desired fluorescence (DAPI vis, ...) to activate the configuration
Adjust the focus with the precision dial while looking through the eyepieces until the image is perfectly sharp
Select the optical configuration Off to turn off the illumination
Your sample is ready for acquisition!

Note

title	Important Reminders

Collect your samples, especially those in the microscope

Leave the microscope and workspace clean

UI Expand

title	Storage management

Files can be saved temporarily (during acquisition) to local C: drive (desktop)
At the end of each session, copy your data to your external drive and delete it from local C: drive
You can store your files on the D: drive (Data Storage). If you do, please create one folder per laboratory using the principal investigator's last name. Inside, create a folder per user using the following nomenclature (First Name_Last Name).

Note

title	Important

In any case,

do not store your files on the C: drive. UI Expand

title	First use

AnchorFirstUseFirstUseWhen using the microscope for the first time, you need to import the microscope settings into the software. You will usually do this during the training session.
This procedure can also be performed if something is not working properly and if you want to reset the software to its original settings.

Note
This process will delete all experiment protocols and reset the software to the original settings for this specific microscope.

If open, close the software NIS and wait until it is completely closed (up to 30 seconds)
On your Desktop open the Softwares folder
Open NIS Settings Utility
Click on the Import tab
Click on Browse
Navigate to your Documents
Select the file NIS Settings for Nikon TE2000E.bin
Click Select
Select all items
Click Import
Click OK
Close NIS Settings Utility
You can now reopen NIS

do not store your files on the C: drive.

UI Expand

title	Shutdown

Save your data
If the oil objective was used, clean it with lens cleaner and lens paper (not Kimwipes)
Select the lowest magnification objective and press Escape to place the objectives in a safe position
Close NIS-Elements
Transfer your data to the D: drive (Data Storage) or to your external drive and delete it from the local C: drive
Turn off the computer
Turn off the X-Cite exacte light (#2)
Turn off the microscope power bar (#3)
Cover the microscope

Note

title	Important Reminders

Collect your samples, especially those in the microscope
Leave the microscope and workspace clean

Tabs Page

title	Manuals

Tabs Page

id	Manuals
title	Manuals

Available manuals

Tabs Page

idLog

title	Log

UI Expand

expanded	true
title	To do

Perfect Focus avec LED de 780 nm et avec filtre dans le trajet lumineux LP 750 nm (inadéquat pour le Cy5.5)
En lumière transmise, pour que le PFS fonctionne, il faut insérer 2 filtres IR dans le trajet lumineux: celui du PFS et celui du statif près de la lampe halogène

UI Expand

title	2025-07-02 Insallation Bombardier 3132

Complete installation
Complete cleaning

Tabs Page

idTechnical Datasheet

title	Technical Datasheet

Stand

Nikon TE2000-E inverted
Nikon T-HUBC Serial 750110
Nikon PFS T-PFS 810060
Nikon T-RCP Serial 750104

Light sources

Transmitted Halogen light Nikon TE2-PS100W Serial 505320 12V
- GIF Filter
- Diffusion
- Infra-red
- Neutral color
- Transmitted light shutter uniblitz VCM D1 Serial A607295
X-Cite exacte Model XCT10A 200 W Seria;l XCT10A-0337
- EXFO Collimator 810-00030
- Prior Shutter HF201HT Serial 7332
- Prior 8 position motorized excitation filter wheel 61817
- Nikon Manual Neutral density filters ND8 ND4
- Manual Fluorescence field diaphragm
- Manual Fluorescence shutter

Condenser

Motorized condenser
Lens LWD NA 0.52
Manual Polorizer
Filter turret 5 motorized positions
1. A BF

PhL

1. DIC M
2. Ph1
3. Ph2
4. Ph3

Objectives

See description

Stage

Prior Proscan 2 H30V4 Serial 62040
Remote control joystick Prior CS152v2 Serial R0772128
Inserts
- 1 slide
- Multi-well plate
- Adapter for 3cm dish

Filters

See description

Detector

Hamamtsu ORCA Flash V2 CMOS Model C11440-22CU Serial 002162 V2
Monochrome Camera 2048 x 2048 pixels
Pixel 6.5 um x 6.5 um
Force air cooled at -10C
Effective sensor area 13.312 mm (H) × 13.312 mm (V
Dark

curent

current 0.06 electron/pixel/s
Reading noise 1.6 electrons (r.m.s) at standard scan
Dynamic range 1 : 18 000
Spectral response >40% between 400-850nm. Max 80% at 550nm

Image Modified

Hamamatsu_Orca Flash 4.0_V2_C11440-22CU_Instruction Manual.pdf

Workstation

HP Z800 Workstation
2 x Intel Xeon X5650 @ 2.67GHz
RAM 24 GB DDR3 666 MHz (6 x 4 GB)
OS 500 GB SSD 530 MB/s
3 TB HD Data Storage (2 TB + 1 TB spanned volume) 130 MB/s
Video Card AMD FirePro V5800 1 GB dedicated memory
Monitor Dell 2407EFP-HC 1900x1200 60Hz
Software NIS-Elements AR v4.20.02 Build 988 HASP ID 4683DFE6
Core NIS-AR 2.3x STANDARD SUA Activation date 2010-07-07 SUA paid 2x SUA Expiration date 2013-08-07
Modules SRM ,Filter Wheel, ND (6 dimensions), Shutter, Stage XY axis

Consumables

Liquid Light Guide

excite

Excite exacte bulb
12V halogen bulb

Tabs Page

idFAQ

title	Troubleshooting & FAQ

Troubleshooting

UI Expand

title	Camera Driver Failed

This can happen when the acquisition software is turned on

before

before the camera has fully initialized.

Turn off NIS-Elements
Turn off the camera
Wait few seconds
Turn the camera back on
Wait until the camera has fully

initialized.

Turn off NIS-Elements

Ensure the Initialize

initialize (light at the back of the camera no longer blinks)
Start NIS-Elements

FAQ

UI Expand

title	Can I use this microscope to look at cell in a dish?

Yes. This is an inverted microscope designed to look at specimen in a dish or a multi-well plate

. The objectives are optimized to image through thin glass bottom multi-well plates

. You may also image specimen mounted between a slide and a 0.17mm thick coverslip

. For long timelapse, be aware

of

of photo-toxicity

Tabs Container

id	Demo Image
title	Nikon Ti2-E
direction	horizontal

Tabs Page

id	Demo Image
title	Demo Image

Image Removed

.

Include Page

	Plateformes:_Plat-foot-en
	Plateformes:_Plat-foot-en

Space shortcuts

Page tree

Versions Compared

Old Version 4

New Version Current

Key

Nikon

TE2000-E inverted microscope

Light sources

Objectives

Filters

Filter cubes

Excitation

filters

Emission filters

Detector

Stand

Light sources

Condenser

Objectives

Stage

Detector

Workstation

Consumables

Troubleshooting

FAQ

Space shortcuts

Page tree

Page History

Versions Compared

Old Version 4

New Version Current

Key

Nikon

TE2000-E inverted microscope

Light sources

Objectives

Filters

Filter cubes

Excitation

filters

Emission filters

Detector

Stand

Light sources

Condenser

Objectives

Stage

Detector

Workstation

Consumables

Troubleshooting

FAQ