Deep Sequencing - Equipment

Sequencing Platform

31 deep_sequencing Sequel Pacific Bioscience of California, Inc.

The Single Molecule Realtime Sequencing technology (SMRT) from Pacific Biosciences provides sequencing of very long fragments at moderate throughput, particularly interesting for de-novo sequencing projects.

CRTD R 3.114 - South Wing +49 351 458-82361 / 82361 You must either specify a string src or a File object.

Sequel (Pacific Bioscience of California, Inc.)

The Single Molecule Realtime Sequencing technology (SMRT) from Pacific Biosciences provides sequencing of very long fragments at moderate throughput, particularly interesting for de-novo sequencing projects.

CRTD R 3.114 - South Wing
32 deep_sequencing HiSeq 2500 Illumina, Inc.

The used Illumina Sequencer offers high throughput single or paired end sequencing for read lengths up to 300 bp.

The HiSeq 2500 is a high output system with up to 200 Mio reads / lane

specifications

CRTD R 3.114 - South Wing +49 351 458-82361 / 82361 You must either specify a string src or a File object.

HiSeq 2500 (Illumina, Inc.)

The used Illumina Sequencer offers high throughput single or paired end sequencing for read lengths up to 300 bp.

The HiSeq 2500 is a high output system with up to 200 Mio reads / lane

specifications

CRTD R 3.114 - South Wing
HiSeq 2500
35 deep_sequencing NextSeq 500 Illumina, Inc.

The used Illumina Sequencer is a fast mid output system for single or paired end sequencing for read lengths of 75 and 150 bp, with up to 400 Mio reads per run.

specifications

CRTD R 3.114 - South Wing +49 351 458-82361 / 82361 You must either specify a string src or a File object.

NextSeq 500 (Illumina, Inc.)

The used Illumina Sequencer is a fast mid output system for single or paired end sequencing for read lengths of 75 and 150 bp, with up to 400 Mio reads per run.

specifications

CRTD R 3.114 - South Wing
NextSeq
36 deep_sequencing MiSeq Illumina, Inc.

The Sequencer offers high throughput single or paired end sequencing with long read length (300 bp).

specifications

CRTD R 3.114 - South Wing +49 351 458-82361 / 82361 You must either specify a string src or a File object.

MiSeq (Illumina, Inc.)

The Sequencer offers high throughput single or paired end sequencing with long read length (300 bp).

specifications

CRTD R 3.114 - South Wing

qPCR Machines

28 deep_sequencing Light Cycler 480 I, 96-well format Hoffmann-La Roche AG

Two qPCR machines are currently available, both Lightcyclers 480 (LC480 Intro). Since it is crucial to have them continuously accessible for the users the initial remark: Use only plastics from the table below with the system to avoid damage!

CRTD Light Cycler 480 (I) is always on 96 well format. Lightcycler (II) is alternating between 96-well format and 384-well format. Therfore this machine can be found twice in the booking system: CRTD Light Cycler 480 Roche  (II-96well) and CRTD Light Cycler 480 Roche  (II-384well). The 384-well Format is available every third week.

In case of special requests do not hesitate to contact the Deep Sequencing Group.

Consumables for the Lightcycler:

Since the Lightcycler applies a high pressure on the plate during cycling, only consumbales produced for Roche Lightcycler 480 are allowed to be used. Here the Information on available plastics. In case of an urgent experiment DO NOT TRY your own plastic, which is not on this list, but ask us to help you out with plates and sealing foil. Thanks for your cooperation.

This is all white plastics to reduce background and increase sensitivity. If you want to try transparent plastics from Biozym, please check the following table of consumables for qPCR from Biozym.

Software

The Software of the system (Windows only) to comprehensively analyse your data can be obtained from us: CTRD, south wing, 3rd floor, Lab 3.115. Two manuals are available in our lab or look at the pdf manual.

CRTD R 1.127 - South Wing +49 351 458-82361 / 82361 You must either specify a string src or a File object. https://techpool.biotec.tu-dresden.de/calendar.php?rid=98

Light Cycler 480 I, 96-well format (Hoffmann-La Roche AG)

Two qPCR machines are currently available, both Lightcyclers 480 (LC480 Intro). Since it is crucial to have them continuously accessible for the users the initial remark: Use only plastics from the table below with the system to avoid damage!

CRTD Light Cycler 480 (I) is always on 96 well format. Lightcycler (II) is alternating between 96-well format and 384-well format. Therfore this machine can be found twice in the booking system: CRTD Light Cycler 480 Roche  (II-96well) and CRTD Light Cycler 480 Roche  (II-384well). The 384-well Format is available every third week.

In case of special requests do not hesitate to contact the Deep Sequencing Group.

Consumables for the Lightcycler:

Since the Lightcycler applies a high pressure on the plate during cycling, only consumbales produced for Roche Lightcycler 480 are allowed to be used. Here the Information on available plastics. In case of an urgent experiment DO NOT TRY your own plastic, which is not on this list, but ask us to help you out with plates and sealing foil. Thanks for your cooperation.

This is all white plastics to reduce background and increase sensitivity. If you want to try transparent plastics from Biozym, please check the following table of consumables for qPCR from Biozym.

Software

The Software of the system (Windows only) to comprehensively analyse your data can be obtained from us: CTRD, south wing, 3rd floor, Lab 3.115. Two manuals are available in our lab or look at the pdf manual.

CRTD R 1.127 - South Wing
Light Cycler 480 (Roche) Right: the LC 480 II potentially in 96 or 384 well plate format. Left: the LC 480 I, always on 96 well plate format.
29 deep_sequencing Light Cycler 480 II, 96-well format Hofmann-La Roche AG

Two qPCR machines are currently available, both Lightcyclers 480 (LC480 Intro). Since it is crucial to have them continuously accessible for the users the initial remark: Use only plastics from the table below with the system to avoid damage!

CRTD Light Cycler 480 (I) is always on 96 well format. Lightcycler (II) is alternating between 96-well format and 384-well format. Therfore this machine can be found twice in the booking system: CRTD Light Cycler 480 Roche  (II-96well) and CRTD Light Cycler 480 Roche  (II-384well). The 384-well Format is available every third week.

In case of special requests do not hesitate to contact the Deep Sequencing Group.

Consumables for the Lightcycler:

Since the Lightcycler applies a high pressure on the plate during cycling, only consumbales produced for Roche Lightcycler 480 are allowed to be used. Here the Information on available plastics. In case of an urgent experiment DO NOT TRY your own plastic, which is not on this list, but ask us to help you out with plates and sealing foil. Thanks for your cooperation.

This is all white plastics to reduce background and increase sensitivity. If you want to try transparent plastics from Biozym, please check the following table of consumables for qPCR from Biozym.

Software

The Software of the system (Windows only) to comprehensively analyse your data can be obtained from us: CTRD, south wing, 3rd floor, Lab 3.115. Two manuals are available in our lab or look at the pdf manual.

CRTD R 1.127 - South Wing +49 351 458-82361 / 82361 You must either specify a string src or a File object. https://techpool.biotec.tu-dresden.de/calendar.php?rid=99

Light Cycler 480 II, 96-well format (Hofmann-La Roche AG)

Two qPCR machines are currently available, both Lightcyclers 480 (LC480 Intro). Since it is crucial to have them continuously accessible for the users the initial remark: Use only plastics from the table below with the system to avoid damage!

CRTD Light Cycler 480 (I) is always on 96 well format. Lightcycler (II) is alternating between 96-well format and 384-well format. Therfore this machine can be found twice in the booking system: CRTD Light Cycler 480 Roche  (II-96well) and CRTD Light Cycler 480 Roche  (II-384well). The 384-well Format is available every third week.

In case of special requests do not hesitate to contact the Deep Sequencing Group.

Consumables for the Lightcycler:

Since the Lightcycler applies a high pressure on the plate during cycling, only consumbales produced for Roche Lightcycler 480 are allowed to be used. Here the Information on available plastics. In case of an urgent experiment DO NOT TRY your own plastic, which is not on this list, but ask us to help you out with plates and sealing foil. Thanks for your cooperation.

This is all white plastics to reduce background and increase sensitivity. If you want to try transparent plastics from Biozym, please check the following table of consumables for qPCR from Biozym.

Software

The Software of the system (Windows only) to comprehensively analyse your data can be obtained from us: CTRD, south wing, 3rd floor, Lab 3.115. Two manuals are available in our lab or look at the pdf manual.

CRTD R 1.127 - South Wing
Light Cycler 480 (Roche) Right: the LC 480 II potentially in 96 or 384 well plate format. Left: the LC 480 I, always on 96 well plate format.
30 deep_sequencing Light Cycler 480 II, 384-well format Hofmann-La Roche AG

Two qPCR machines are currently available, both Lightcyclers 480 (LC480 Intro). Since it is crucial to have them continuously accessible for the users the initial remark: Use only plastics from the table below with the system to avoid damage!

CRTD Light Cycler 480 (I) is always on 96 well format. Lightcycler (II) is alternating between 96-well format and 384-well format. Therfore this machine can be found twice in the booking system: CRTD Light Cycler 480 Roche  (II-96well) and CRTD Light Cycler 480 Roche  (II-384well). The 384-well Format is available every third week.

In case of special requests do not hesitate to contact the Deep Sequencing Group.

Consumables for the Lightcycler:

Since the Lightcycler applies a high pressure on the plate during cycling, only consumbales produced for Roche Lightcycler 480 are allowed to be used. Here the Information on available plastics. In case of an urgent experiment DO NOT TRY your own plastic, which is not on this list, but ask us to help you out with plates and sealing foil. Thanks for your cooperation.

This is all white plastics to reduce background and increase sensitivity. If you want to try transparent plastics from Biozym, please check the following table of consumables for qPCR from Biozym.

Software

The Software of the system (Windows only) to comprehensively analyse your data can be obtained from us: CTRD, south wing, 3rd floor, Lab 3.115. Two manuals are available in our lab or look at the pdf manual.

CRTD R 1.127 - South Wing +49 351 458-82361 / 82361 You must either specify a string src or a File object. https://techpool.biotec.tu-dresden.de/calendar.php?rid=317

Light Cycler 480 II, 384-well format (Hofmann-La Roche AG)

Two qPCR machines are currently available, both Lightcyclers 480 (LC480 Intro). Since it is crucial to have them continuously accessible for the users the initial remark: Use only plastics from the table below with the system to avoid damage!

CRTD Light Cycler 480 (I) is always on 96 well format. Lightcycler (II) is alternating between 96-well format and 384-well format. Therfore this machine can be found twice in the booking system: CRTD Light Cycler 480 Roche  (II-96well) and CRTD Light Cycler 480 Roche  (II-384well). The 384-well Format is available every third week.

In case of special requests do not hesitate to contact the Deep Sequencing Group.

Consumables for the Lightcycler:

Since the Lightcycler applies a high pressure on the plate during cycling, only consumbales produced for Roche Lightcycler 480 are allowed to be used. Here the Information on available plastics. In case of an urgent experiment DO NOT TRY your own plastic, which is not on this list, but ask us to help you out with plates and sealing foil. Thanks for your cooperation.

This is all white plastics to reduce background and increase sensitivity. If you want to try transparent plastics from Biozym, please check the following table of consumables for qPCR from Biozym.

Software

The Software of the system (Windows only) to comprehensively analyse your data can be obtained from us: CTRD, south wing, 3rd floor, Lab 3.115. Two manuals are available in our lab or look at the pdf manual.

CRTD R 1.127 - South Wing
Light Cycler 480 (Roche) Right: the LC 480 II potentially in 96 or 384 well plate format. Left: the LC 480 I, always on 96 well plate format.

Covaris Sonicators

26 deep_sequencing Covaris LE 220 Cocaris, Inc.

Large Scale Sonicator with Adaptive Focused Acoustics™ in 96 well format
Notes: Highly reproducible sonicator for DNA and chromatin shearing. It manages samples in 8, 24, 48, 96 well SBS microplate formats processing an entire row at a time. If you want to use this machine the first time, please contact the Deep Sequencing Group

Adaptive Focused Acoustics™ (AFA) is an advanced acoustic technology enabling the mechanical processing of samples by Focused-ultrasonicators. AFA employs highly controlled bursts of focused high-frequency acoustic energy to efficiently and reproducibly process samples in a temperature-controlled and non-contact environment. The very high frequency ultrasound utilized in AFA results in a wavelength of only a few millimeters, enabling the acoustic energy to be focused into a discrete zone within a sample vessel. This focused and efficient delivery requires a minimal amount of energy input avoiding the adverse effects of excess energy such as damaging heat, experimental variability, and sample over-processing typical of ordinary sonicators. (Covaris)

Few things to make sure your experiment will work smoothly

  • you have the initial introduction into the device given by the Deep Sequencing Group (ngs@biotec.tu-dresden.de), this will allow you to book the systems

  • when you book make sure the system is cooled down enough to achieve reproducible results

  • in case of problems speak to the members of the Deep Sequencing Group and ask for assistance to avoid damage of the systems  

Further information on the device: covarisinc.com/products/afa-ultrasonication/s-series/
Information for protocols: covarisinc.com/resources/protocols/

CRTD R 0.227 - North Wing +49 351 458-82361 / 82361 You must either specify a string src or a File object. https://techpool.biotec.tu-dresden.de/calendar.php?rid=287

Covaris LE 220 (Cocaris, Inc.)

Large Scale Sonicator with Adaptive Focused Acoustics™ in 96 well format
Notes: Highly reproducible sonicator for DNA and chromatin shearing. It manages samples in 8, 24, 48, 96 well SBS microplate formats processing an entire row at a time. If you want to use this machine the first time, please contact the Deep Sequencing Group

Adaptive Focused Acoustics™ (AFA) is an advanced acoustic technology enabling the mechanical processing of samples by Focused-ultrasonicators. AFA employs highly controlled bursts of focused high-frequency acoustic energy to efficiently and reproducibly process samples in a temperature-controlled and non-contact environment. The very high frequency ultrasound utilized in AFA results in a wavelength of only a few millimeters, enabling the acoustic energy to be focused into a discrete zone within a sample vessel. This focused and efficient delivery requires a minimal amount of energy input avoiding the adverse effects of excess energy such as damaging heat, experimental variability, and sample over-processing typical of ordinary sonicators. (Covaris)

Few things to make sure your experiment will work smoothly

  • you have the initial introduction into the device given by the Deep Sequencing Group (ngs@biotec.tu-dresden.de), this will allow you to book the systems

  • when you book make sure the system is cooled down enough to achieve reproducible results

  • in case of problems speak to the members of the Deep Sequencing Group and ask for assistance to avoid damage of the systems  

Further information on the device: covarisinc.com/products/afa-ultrasonication/s-series/
Information for protocols: covarisinc.com/resources/protocols/

CRTD R 0.227 - North Wing
Covaris LE 220 for 96 well plates
27 deep_sequencing Covaris S2 Covaris, Inc.

Sonicator with Adaptive Focused Acoustics™ in single tube mode
Notes: Highly reproducible sonicator for DNA shearing and chromatin shearing. If you want to use this machine the first time, please contact the Deep Sequencing Group

Adaptive Focused Acoustics™ (AFA) is an advanced acoustic technology enabling the mechanical processing of samples by Focused-ultrasonicators. AFA employs highly controlled bursts of focused high-frequency acoustic energy to efficiently and reproducibly process samples in a temperature-controlled and non-contact environment. The very high frequency ultrasound utilized in AFA results in a wavelength of only a few millimeters, enabling the acoustic energy to be focused into a discrete zone within a sample vessel. This focused and efficient delivery requires a minimal amount of energy input avoiding the adverse effects of excess energy such as damaging heat, experimental variability, and sample over-processing typical of ordinary sonicators. (Covaris)

Few things to make sure your experiment will work smoothly

  • you have the initial introduction into the device given by the Deep Sequencing Group (ngs@biotec.tu-dresden.de), this will allow you to book the systems

  • when you book make sure the system is cooled down enough to achieve reproducible results

  • in case of problems speak to the members of the Deep Sequencing Group and ask for assistance to avoid damage of the systems  

Further information on the device: covarisinc.com/products/afa-ultrasonication/s-series/
Information for protocols: covarisinc.com/resources/protocols/

CRTD R 0.227 - North Wing +49 351 458-82361 / 82361 You must either specify a string src or a File object. https://techpool.biotec.tu-dresden.de/calendar.php?rid=286

Covaris S2 (Covaris, Inc.)

Sonicator with Adaptive Focused Acoustics™ in single tube mode
Notes: Highly reproducible sonicator for DNA shearing and chromatin shearing. If you want to use this machine the first time, please contact the Deep Sequencing Group

Adaptive Focused Acoustics™ (AFA) is an advanced acoustic technology enabling the mechanical processing of samples by Focused-ultrasonicators. AFA employs highly controlled bursts of focused high-frequency acoustic energy to efficiently and reproducibly process samples in a temperature-controlled and non-contact environment. The very high frequency ultrasound utilized in AFA results in a wavelength of only a few millimeters, enabling the acoustic energy to be focused into a discrete zone within a sample vessel. This focused and efficient delivery requires a minimal amount of energy input avoiding the adverse effects of excess energy such as damaging heat, experimental variability, and sample over-processing typical of ordinary sonicators. (Covaris)

Few things to make sure your experiment will work smoothly

  • you have the initial introduction into the device given by the Deep Sequencing Group (ngs@biotec.tu-dresden.de), this will allow you to book the systems

  • when you book make sure the system is cooled down enough to achieve reproducible results

  • in case of problems speak to the members of the Deep Sequencing Group and ask for assistance to avoid damage of the systems  

Further information on the device: covarisinc.com/products/afa-ultrasonication/s-series/
Information for protocols: covarisinc.com/resources/protocols/

CRTD R 0.227 - North Wing
Covaris S2 for single tubes

Automated Liquid Handling Platform

23 deep_sequencing QIAcube - robotic workstation for automated purification of DNA, or RNA Qiagen

The QIAcube is a fully automated workstation for sample purification using Qiagen spin columns.

CRTD R 3.115 - South Wing +49 351 458-82361 / 82361 You must either specify a string src or a File object.

QIAcube - robotic workstation for automated purification of DNA, or RNA (Qiagen)

The QIAcube is a fully automated workstation for sample purification using Qiagen spin columns.

CRTD R 3.115 - South Wing
Qiagen QIAcube
24 deep_sequencing Biomek FXp Beckman Coulter

The Beckman Coulter Biomek FXp is a laboratory automation system for liquid handling including plate movements.

CRTD R 3.114 - South Wing +49 351 458-82361 / 82361 You must either specify a string src or a File object.

Biomek FXp (Beckman Coulter)

The Beckman Coulter Biomek FXp is a laboratory automation system for liquid handling including plate movements.

CRTD R 3.114 - South Wing
Biomek FXp
25 deep_sequencing Bravo standard Agilent Technologies

The Agilent Bravo is an automated Liquid Handling Workstation.

CRTD R 3.114 - South Wing +49 351 458-82361 / 82361 You must either specify a string src or a File object.

Bravo standard (Agilent Technologies)

The Agilent Bravo is an automated Liquid Handling Workstation.

CRTD R 3.114 - South Wing
Bravo
19 deep_sequencing Fragment Analyzer™ - Automated CE system Fragment Analyzer™ Advanced Analytical Technologies,Inc.

The Advanced Analytical Fragment Analyzer is an automated parallel capillary electrophoresis system, that does everything from high-resolution analysis to fast DNA separations, across a wide separation range.

CRTD R 3.114 - South Wing +49 351 458-82361 / 82361 You must either specify a string src or a File object.

Fragment Analyzer™ - Automated CE system

Fragment Analyzer™ (Advanced Analytical Technologies,Inc.)

The Advanced Analytical Fragment Analyzer is an automated parallel capillary electrophoresis system, that does everything from high-resolution analysis to fast DNA separations, across a wide separation range.

CRTD R 3.114 - South Wing
Advanced Analytical Fragment Analyzer
20 deep_sequencing Megaruptor® - device for the fragmentation of DNA Megaruptor® Diagenode Diagnostics

The Diagenodes Megaruptor is a simple, automated, and reproducible device for the fragmentation of DNA from 2 kb - 75 kb.

CRTD R 3.115 - South Wing +49 351 458-82361 / 82361 You must either specify a string src or a File object.

Megaruptor® - device for the fragmentation of DNA

Megaruptor® (Diagenode Diagnostics)

The Diagenodes Megaruptor is a simple, automated, and reproducible device for the fragmentation of DNA from 2 kb - 75 kb.

CRTD R 3.115 - South Wing
Megaruptor®
21 deep_sequencing Tapestation - for automated QC of DNA and RNA Agilent 2200 Tapestation Agilent

The Agilent 2200 Tapestation instrument can be used for automated sample QC, including sample loading, separation and imaging.

CRTD R 3.114 - South Wing +49 351 458-82361 / 82361 You must either specify a string src or a File object.

Tapestation - for automated QC of DNA and RNA

Agilent 2200 Tapestation (Agilent)

The Agilent 2200 Tapestation instrument can be used for automated sample QC, including sample loading, separation and imaging.

CRTD R 3.114 - South Wing
Agilent 2200 Tapestation
22 deep_sequencing BluePippin - pulsed-field electrophoresis BluePippin Sage Science

The Sage BluePippin serves to resolve and collect high molecular weight DNA. The seperation of the DNA is done by Pulse-field electrophoresie.

CRTD R 3.115 - South Wing +49 351 458-82361 / 82361 You must either specify a string src or a File object.

BluePippin - pulsed-field electrophoresis

BluePippin (Sage Science)

The Sage BluePippin serves to resolve and collect high molecular weight DNA. The seperation of the DNA is done by Pulse-field electrophoresie.

CRTD R 3.115 - South Wing
Sage BluePippin