Welcome to the UMICH Bru-seq Lab Core!

What information can I find on this page?

• Overview
• Our services 
• What steps should I follow to submit a sample?
• Sample drop-off
• Mailing samples
• Leadership
• Location and hours of operation
• Protocols
• Publications
• Contacts

 

Overview

The University of Michigan Bru-seq Lab is a core facility that provides nascent RNA processing and sequencing services for samples prepared using the Bru-seq suite of techniques. We serve researchers from the University of Michigan, and other institutions in the United States and around the world. 

Bru-seq is a next-generation sequencing (NGS) technique that uses a metabolic labeling approach by integrating 5’-bromouridine (Bru) to map the nascent transcriptome. Users can request services for Bru-seq, as well as its derived assays, with each assay offering a unique insight into the transcriptome.

• Bru-seq: To measure synthesis of RNA
• BruChase-seq: To measure stability of RNA
• BruUV-seq: To identify transcription start sites and capture unstable transcripts such as enhancer RNA and PROMPTs
• BruDRB-seq: To measure RNA Polymerse II elongation rates via RNA

 

 Our services

• Total RNA and nascent Bru-RNA isolation
• cDNA library preparation
• Paired-end 150bp Next-Generation Sequencing (using the University of Michigan Advanced Genomics Core)
• NGS data processing
• Data storage 

 

What steps should I follow to submit a sample?  

 

Please refer to the Protocols section for information regarding preparation of samples for the four Bru-seq assays.

1. Create an “Experimental Plan” request under the Request Services tab.
2. Once you submit the form, we will process it on our end and reach out to you if we have any questions.
3. Once the “Experimental Plan” form has been approved, please submit a  “Bru-seq Sample Submission Request” under the Request Services tab.
4. Once the “Bru-seq Sample Submission Request” has been approved, please either edit or schedule a sample Drop-Off, under the Schedule Drop-Off tab. Please go to "View Schedule" to reserve your time. If you are mailing us your samples, you can skip this step.
5. Once we receive your samples, they get put in a queue. We are unable to commit to a turnaround time as the processing time is usually highly variable, but will remain in contact with you through iLabs with updates. 

 

Sample drop-off:

 

Sample drop-off must be prearranged. Please refer to the "Location and hours of operation" section before scheduling a drop-off.

 

Please submit samples in TRIzol unless prior permission has been obtained.

Exception: Samples can be submitted as cells in culture (plates, flasks) only by UofM NCRC occupants. 

 

Mailing samples:

 

Samples must be submitted in TRIzol.

 

Please ship your samples on dry ice to this address:

Michelle Paulsen

1410 Bldg 520, NCRC

1600 Huron Parkway

Ann Arbor, MI-48109

734-763-0448

 

 

 

Leadership

Mats Ljungman | Core Director

Michelle Paulsen | Core Manager

Location and hours of operation

Hours	Location
Monday - Friday 7am - 4pm Sample submission must be prearranged	1410 B520 NCRC 1600 Huron Parkway Ann Arbor, MI  48109

 Protocols

• Preparing samples for Bru-seq
• Preparing samples for BruChase-seq
• Preparing samples for BruUV-seq
• Preparing samples for BruDRB-seq

 Publications

• Bru-seq and BruChase-seq
• BruUV-seq
• BruDRB-seq  
• All other publications using Bru-seq assays

Contacts

Name	Role	Phone	Email	Location
Michelle Paulsen	Core Manager	734-763-0448	tenbroek@umich.edu	1351 B520 NCRC
Mats Ljungman	Core Director	734-674-3330	ljungman@umich.edu	1346 B520 NCRC
Ishwarya Venkata Narayanan	Data Analysis	734-763-0448	ivenkat@umich.edu	1356 B520 NCRC