Genome Research Core

 

 

Sequencing Core, Genomics Core, and Genome Editing Core are now one - Genome Research Core.

 

 

Quick Reference Guide:

Staff and Contact Information

News

Getting Started

Overview of Sequencing Core

Hours of Operation

Scientific Storeroom

Oligo Synthesis

Location/Maps

 

 

How to cite:

When you publish manuscripts based on data generated at our facility, we would greatly appreciate an acknowledgment of our efforts. Please cite our facility as follows (for example): “Library preparation and sequencing were performed at the University of Illinois at Chicago Sequencing Core (UICSQC).” We adhere to a general policy for acknowledgments and authorship as established by the Association for Biomolecular Resource Facilities (ABRF), and we support the following statement from the ABRF: "The existence of core facilities depends in part on proper acknowledgment in publications. This is an important metric of the value of most core facilities. Proper acknowledgment of core facilities enables them to obtain financial and other support so that they may continue to provide their essential services in the best ways possible. It also helps core personnel to advance in their careers, adding to the overall health of the core facility." Please contact us for assistance in drafting manuscripts.

Staff and Contact Information

    

    Director Dr. Stefan J Green    

Over 20 years of experience as a molecular biologist. Director of Sequencing Core since 2010.                                                                                              

Contact Information: greenDNA@uic.edu   312-996-7509       Location: CMWT A-310A

 

    Assistant Director Kevin Kunstman    

Assistant director of Sequencing Core. NGS Project planning.                                                                                         

Contact Information: kunstman@uic.edu   312-413-1397       Location: MSB E-307

 

  Research Technologist Manager Cecilia S Chau (Cece)                    

Sanger Sequencing, Fragment Analysis, Freezer Program (Special Orders), IDT Oligos, and Cell-line authentication (STR analysis).     

Contact Information: ccchau@uic.edu   312-355-0679            Location: CMWT A-310                                 

 

  Research Technologist Manager Dagmar Sweeney             

Project management, Nucleic acid extractions, qPCR, ddPCR, quantification and quality analysis.

Contact Information: dsween2@uic.edu    312-413-9290            Location: CMWT A-310

 

 Research Technologist II Marieta Hyde                           

Next Generation Sequencing, DNA shearing.     

Contact Information: mbojichk@uic.edu  312-996-4963            Location: CMWT A-307          

                                        

 Senior Research Specialist Weihua Wang            

Next Generation Sequencing. Microbiome studies. High throughput Amplicon Sequencing.

Contact Information: wwh@uic.edu  312-996-4963       Location: CMWT A-307

 

 Research Technologist II Maryia Radkevich             

NGS - Shotgun Sequencing, Sanger Sequencing, IDT Oligos, DNA/RNA quantification and quality control.

Contact Information: mradke2@uic.edu  312-355-0679            Location: CMWT A-310

 

 Research Technologist I Yiding Shen            

Next Generation Sequencing. Microbiome studies. High throughput Amplicon Sequencing.

Contact Information: yds8316@uic.edu  312-996-4963       Location: CMWT A-307

 

Research Technologist I Trisha Jeon            

Sanger Sequencing, STR, Mycoplasma testing, DNA/RNA quantification and quality control.

Contact Information: tjeon5@uic.edu  312-355-0679            Location: CMWT A-310

  

News/Current Events

 

Sequencing Core, Genomics Core, and Genome Editing Core are now one - Genome Research Core. Please, visit our new website at http://rrc.uic.edu/cores/genome-research/.

 

 

Getting Started

 

To reserve time on the equipment or request services, you must have an iLab account.

  

Obtaining an iLab account

  • UIC NetID is now fully integrated with iLab
  • For detailed registration information please visit RRC Getting Started
  • All fields must be filed out completely. Please make sure all your information is accurate. We will be sending invoices and all other communication according to the information you provided here.
  • If you have any questions about account registration, please email support@ilabsolutions.com

 

Logging into iLab

  • To login, please type in your institutional email or UIC NetID and password in the top right of this page.

 

Overview of Sequencing Core

 

 

The University of Illinois at Chicago, Center for Genomic Research - Sequencing Core strives to support your research efforts by providing access to equipment, technical and scientific expertise, and rapid sample analysis at a reasonable price. In addition to providing technical services, our staff and director are happy to provide advice on choosing proper reagents, training on self-use instrumentation, and on developing the right technical and scientific approach for the analysis of your samples. We will endeavor to provide you with access to the newest technologies and with the resources to analyze your data. If you have any questions or concerns, please do not hesitate to contact us. The best way to reach us is by email.

 

 

We provide a suite of services, including, but not limited to:

  • Sanger Sequencing
  • Fragment Analysis
  • Cell Line Authentication
  • Mycoplasma Testing
  • Nucleic Acid Extraction, Quantification and Quality Analysis
  • Real-Time PCR (qPCR)
  • Next-Generation Sequencing
  • Genome Sequencing
  • Targeted Sequence Capture
  • RNA-Seq
  • Microbiomes and Metagenomes
  • High-throughput Amplicon Sequencing

 

We also have many instruments that can be either used by our customers themselves or requested as services. Instruments that can be used by customers themselves are:

 

  • NanoDrop One - Thermo Scientific™ Microvolume UV-Vis Spectrophotometer
  • Covaris S2 acoustic shearing device – for library preparations, including ChIP-seq
  • Life Technologies 7500Fast – Real-Time PCR machine
  • Life Technologies Viia7 (CMWT A-310) - (96-well standard, 96-well fast, and 384-well interchangeable blocks)

 

Instruments that can be requested as services:

 

  • Life Technologies 3730xl Analyzer – for Sanger (Daily) sequencing, fragment analysis and STR
  • Sage Scientific PippinPrep – for automated size selection of DNA fragments
  • Agilent TapeStation 4200– for automated electrophoretic analysis of DNA and RNA samples
  • Life Technologies Qubit – for DNA/RNA quantification
  • Illumina MiniSeq, MiSeq and NextSeq500 Instruments - Next-Generation sequencers
  • Bullet Blender – sample homogenizing
  • MP FastPrep-24 5G – sample homogenizing
  • Promega Maxwell 16 – for extracting DNA and RNA from a variety of sample types
  • Promega Maxwell RSC – for extracting DNA and RNA from a variety of sample types 
  • Qiagen QIAcube – for extracting DNA and RNA from a variety of sample types 

We also have a freezer program with reagents and consumables for reverse transcription and qPCR (see the item list under "Freezer Program"). We work with IDT company to provide free shipping for oligo synthesis (see under "Oligos" for more information). We are happy to assist in research studies as well as conducting larger scale projects. We are integrated with the UIC Genomics Core (GMC; Dr. Zarema Arbieva, zarbieva@uic.edu) and the UIC Research Informatics Core (RIC; Dr. Mark Maienschein-Cline, mmaiensc@uic.edu).

 

Hours of Operation

Regular business hours for the DNA Services Facility are 8:30 A.M. to 4:30 P.M. Monday - Friday. Between 11:30 A.M. and 2:30 P.M. is half an hour lunch break (the exact time varies depending on how busy it is, so please call ahead if you will need assistance).

 

Scientific Storeroom

Our freezers are located at the Sequencing Core (A-310 CMWT). 

 

Life Technologies

Description Unit DNAS Price ($)
ABI Optical Adhesive Covers 10/pack 18.53
ABI Optical Adhesive Covers 100/pack 185.3
Taqman Gene Expression Master Mix 5 ml  174.83 
Taqman PCR Master Mix (#4304437) 5 ml 415.20
Taqman PCR Master Mix, no amperase UNG (#4324018) 5 ml 465.56
ABI Power SYBR Green PCR Master Mix (#4367659) 5ml  213.73
Fast SYBR Green Master Mix 5ml 215.50
MicroAmp Optical 384-Well Rxn Plates 10 Plates/pkg 41.27
MicroAmp Fast Optical 96-Well Rxn Plates w/ barcode 10 Plates/pkg 32.92
MicroAmp Optical 96-Well Rxn Plates 10 Plates/pkg 46.53
TaqMan MicroRNA Reverse Transcription Kit 200 rxns 322.30
High Capacity cDNA Reverse Transcription Kit 200 rxns 200.50
AM7020 RNA later® (100 ml) 100ml 128.07
AM7021 RNA later® (500 ml) 500ml  393.46 
AM1914 RNAqueous 4PCR Kit (#AM1914) 30 rxn 203.94
AM1906 DNAfree 50 rxn 120.5
AM1907 TURBO DNAfree (#AM1907) 50 rxn 122.10
AM2682 RNase Inhibitor (Cloned) 40U/ul 159.50
AM1975 RecoverAll Nucleic acid kit for FFPE 40 rxn 287.10
K1082 DREAMTAQ GREEN PCR MASTERMIX 2X
 
1.25ml  25.92


 

Roche

Product No. Product Unit DNAS Price ($)
4913914001 *FASTSTART UNIVERSAL SYBR MM 5 ML 165.56
       

 
 

 

Oligo Synthesis

Oligos are delivered to the facility after 15:00. We do not notify individuals when oligos have arrived, but you may call to see if your oligo has arrived after 15:00.

 

IDT (Integrated DNA Technologies, Inc)

To order oligos from IDT at a discount and with free shipping, you MUST use this link to register: http://idtdna.com/uic/

Your oligos will be delivered at the drop-off location you have indicated in your order.

 

Pricing

Oligo Synthesis

Oligo Synthesis Pricing

Size

Price

25 nM

$0.19 per base

100nM

$0.39 per base

250nM

$0.61 per base

1,000 nM (1.00 µM)

$1.1 per base

 

 

 

Product

PAGE

HPLC

IE HPLC

Labready

100 nM

$49.5

$44.5

$44.5

$2.97

 

PrimeTime - qPCR Nuclease Assays

 

Reactions (20ul)

Price (FAM/ZEN/LOWA BLACK FQ)

Price (all other dye/quencher combinations)

PrimeTime Mini

100

$79.2

-

PrimeTime Standard

500

$128.7

$161.37

PrimeTime XL

2500

$376.2

$430.65

 

 gBlock Gene Fragment orders (120-250 bp) are $84.55.

 

 

** Prices are subject to change without any further notice**

 

 

Primer pick up locations

SeqCore MSB Drop Box
E-312 MSB
835 S Wolcott Ave
Chicago, Illinois 60612

RRC SeqCore MBRB Drop Box
3368 Molecular Biology Research Building (MBRB)
900 S Ashland Ave
Chicago, Illinois 60607

RRC SeqCore SES Drop Box
110 Science and Engineering South (SES)
845 W Taylor St
Chicago, IL 60607

 

Contacts

Name Role Phone Email Location
Stefan Green
Director
 
312-996-7509
 
greenDNA@uic.edu
 
CMWT A310
 
Zarema Arbieva
Director
 

 

 
CMWT A302
 
Kevin Kunstman
Assistant Director
 
312-413-1397
 
kunstman@uic.edu
 
MSB E307
 
Maureen Regan
Assistant Director
 

 

 
MBRB 2264
 

Map


Our mailing address is 835 S Wolcott, CMWT A-310, Chicago, IL 60612, which is indicated on this map:




View Larger Map



The map is slightly confusing because our building is connected with many other buildings. Therefore, please use these directions:



-->If you are coming by car, the most convenient parking garage that accepts credit cards is next to the UIC Hospital on Wood St, between Grenshaw and Filmore streets. Walk North on Wolcott until you reach the corner of Wolcott and Polk. Enter the building and use the elevators to get to the third floor. When you get off of the elevator turn left around the corner. Our lab is the first room on your left (A-310).





-->If you are coming by public transportation, the most convenient is to come by CTA Pink line and get off at Polk Station. Walk straight west until you reach the corner of Polk and Wolcott. Enter the building and use the elevators to get to the third floor. When you get off of the elevator turn left around the corner. Our lab is the first room on your left (A-310). If arriving by blue line, the appropriate stop is Illinois Medical District.