Genomics & Bioinformatics Core Facility

News

NEW Computational Training Program Intiative (REACT)

The REACT program (Rapid Exposure to Advanced Computational Training) is a short-term initiative to support graduate students to receive the latest training in computational tools and techniques in their field. REACT is a joint effort between the Environmental Change Initiative (ECI), The Eck Institute for Global Health (EIGH), and the Genomics and Bioinformatics Core Facility (GBCF). REACT will provide up to $1,500 to cover student tuition, registration, and board required to attend nationally-recognized workshops that provide the latest training in computational approaches.

For more details on the program and student eligibility, application instructions, and a list of available workshops, please visit http://genomics.nd.edu/react-program

GBCF Holiday Closure Schedule

Dear Sequencing Users,

The Genomics Core Facility will be closed for the holidays from Tuesday Dec 20- Monday Jan 2nd. We will re-open on Tuesday Jan 3rd, 2017

Last day to submit samples for full service Sanger sequencing will be Wednesday December 14, 2016
All order forms must be submitted no later than 12:00 noon
Samples dropped off to the core no later than 2:00pm

Ready-to-run and fragment analysis plates can be submitted through Friday December 16, no later than 12:00 noon. Please contact genomics core staff in advance to arrange times for drop off.

Please remember to place your CORES orders, and e-mail order forms to genomics@nd.edu

Thank you and a very happy holidays from all of us here at the GBCF!

Join Us! Indiana CTSI Notre Dame Retreat

Please Join Us For The: Indiana CTSI Notre Dame Retreat 2016

Time: Fri Oct 21, 2016, 9:00AM - 3:30PM

Location: Jordan Hall of Science

Presentation Topics: Community Health Engagement Program • Global Health • Molecular Therapeutics • Rare & Neglected Diseases • Team Science • Core Facilities

All are welcome to attend the Indiana CTSI Notre Dame Retreat on Friday, October 21, 2016 in the Jordan Hall of Science from 9:00 A.M to 3:30 P.M. To register, please complete the form here: https://redcap.uits.iu.edu/surveys/?s=N73HXPAELM.

The keynote lecture will be given by James Inglese, Principal Investigator, Division of Pre-Clinical Innovation, National Center for Advancing Translational Sciences (NCATS)
National Institutes of Health.

Funding Opportunity! Indiana CTSI Pilot Funding for Research Use of Core Facilities

Indiana CTSI Pilot Funding For Research Use of Core Facilities

SUBMISSION DEADLINE- OCT 07, 2016

Description:  The Indiana CTSI Pilot Funding program is intended to promote the use of technologies and expertise afforded by the Indiana CTSI Core Facilities available at all partner institutions. Successful proposals will demonstrate outstanding scientific merit that can be linked to generating extramural funding or novel intellectual property (IP). Success of the program will be viewed, in part, by the fostering of new funded grants or providing significant contributions to grant renewals. Therefore, proposals will be judged with equal measure on scientific merit and the likelihood of generating new IP or extramural grant support. See the program guidelines for more information: www.indianactsi.org

For questions, please contact Melanie DeFord, using the information below.

Melanie E. DeFord
Director, Grants Business Management
Notre Dame Research
940 Grace Hall
E: mdeford@nd.edu
P: 574-631-8805
W: research.nd.edu

Please contact Michael Pfrender to secure letters of support.

Michael Pfrender, Ph.D.
Director, Genomics & Bioinformatics Core Facility
Associate Professor Department of Biological Sciences
109B Galvin Life Science Center
E: mpfrende@nd.edu
P: 574-631-0591
W: genomics.nd.edu

Interested in a hands-on analysis workshop?

We are considering offering an analysis workshop in Spring 2016. If you are interested in taking part in an upcoming workshop, or just have suggestions for future traning and workshop topics, please take a few minutes to provide your input on this brief questionnaire so that we can tailor the next workshop to meet your needs. It is very breif and should only take a few minutes of your time. We thank you for participating and offering your feedback.

Please provide some input by following this link: https://www.surveymonkey.com/r/D8LL9MY

Funding Opportunity! HCRI-ACS Research Grant

American Cancer Society Institutional Research Grant

SUBMISSION DEADLINE- MARCH 3, 2016

Description:  The Harper Cancer Research Institute is pleased to announce the availability of funds for new pilot projects to assist new investigators who hold the rank of Assistant Professor (tenure track). These funds are from the American Cancer Society Instiutional Research Grant (ACS IRG). This grant provides support for beginning investigators to enable them to initiate their independent research program. Faculties from all disciplines, with any project relating to cancer research, are especially encouraged to apply.: More Information

For questions regarding proposal development and eligibility, please contact Rob Stahelin (rstaheli@nd.edu)

For GBCF related questions, or to discuss your project ideas please contact Michael Pfrender, Director, Genomics & Bioinformatics Core Facility (mpfrende@nd.edu

New wiki page for CRC biomodules

The core, in conjunction with the CRC, has added new biomodules to the CRC. A wiki page for these tools can be accessed here: http://wiki.crc.nd.edu/wiki/index.php/Installed_Applications#Biology

The module currently contains eleven pieces of software; FastQC, Trimmomatic, BWA, Bismark, Bowtie-2, TopHat, Samtools, GATK, Picard tools, Trinity, HTSeq, and Cutadapt. All of this software can be accessed with the command “module load bio” on the command line when logged into the CRC. Any questions on usage or requests for additional software can be directed to Joe Sarro (jsarro@nd.edu).

Join Notre Dame Research at the Core Facility Fair!

On Wednesday, September 16th, 2015, Notre Dame Research will host its annual Core Facility Fair from 10:00 a.m. to 2:00 p.m. in the Jordan Hall of Science Galleria.

The event is open to all interested undergraduate students, graduate students, post-docs, faculty, and staff, as well as external customers, who wish to learn more about what the core facilities are and how their state-of-the-art instrumentation and expertise can benefit research projects or work areas.

Personnel from the core facilities will be there to answer questions and there will be a chance to win great prizes, like an iPad mini and Notre Dame Research items. The following core facilities are participating:

- Center for Research Computing
- Center for Social Research
- Chemical Synthesis and Drug Discovery Facility
- Computer Aided Molecular Design
- Engineering Machine Shops
- Fluorescence Assisted Cell Sorting Facility
- Freimann Life Science Center
- Genomics and Bioinformatics Core Facility
- Magnetic Resonance Research Center
- Mass Spectrometry and Proteomics Facility
- Materials Characterization Facility
- Molecular Structure Facility
- Notre Dame Integrated Imaging Facility
- Notre Dame Linked Experimental Ecosystem Facility
- Notre Dame Nanofabrication Facility
- Notre Dame Turbomachinery Facility
- Physics Machine Shop
- Radiation Laboratory: Glassblowing and Machine Shops

For more information, please contact Kara Primmer (khuegel1@nd.edu).

ND Genomics Gets A New Look

In order to bring you a better genomics experience, we've reached out to Monkeyhouse Creative Group to design and implement a new site design. It is our goal to make accessing information related to the Notre Dame Genomics and Bioinformatics Department easier, faster, and friendlier to our students and faculty.

Ordering full-service capillary sequencing?

We have a new order form for full-service capillary sequencing services. Please use this form for all full-service orders and follow the instructions on the order form.

Roche NimbleGen has stopped accepting orders for their microarray platform

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