Genomics
Genomics (GRG)
Mission
The goal of the Genomics Research Group is to provide both academic and industrial scientists useful information and guidance in the use of various microarray, next gen sequencing and other genomic platforms and applications in their research. The main focus of the GRG is to promote communication and cooperation among core laboratories providing microarray and data analysis services. In addition, the GRG is charged with conducting studies to help assess technological advancements and provide information about these technologies to all interested parties. Information developed and communicated by the GRG should be used to help laboratories evaluate their performance and achieve the highest quality results possible from the use of genomic technologies. To accomplish these goals the GRG will also strive to provide ways for sharing information relevant to the administration of facility laboratories that provide microarray technologies as a shared resource.
Questions or interest in joining an ABRF research group?
Current Membership
- Roxann Ashworth - Johns Hopkins University
- John Ashton - University of Rochester Medical Center
- Sridar Chittur - (Co-Chair) - SUNY Albany
- Catharine Fournier - (Chair) ETH Zurich Functional Genomics Center
- Stefan Green - Rush University Medical Center
- Claire Hartmann (Executive Board liaison) - Harvard University
- Kevin Knudtson - University of Iowa
- Christopher Mason - Weill Cornell Medical College
- Hubert Rehrauer - ETH Zurich Functional Genomics Center
- Robert Steen - Harvard Medical School
- Ioannis Vlachos - Harvard Medical School
Studies
Elucidating the effects of the Deepwater Horizon oil spill on the Atlantic oyster using global transcriptome analysis
- View Document (96K)
evaluation of the sensitivity and specificity of miRNA profiling on QPCR, microarray, and next-gen sequencing platforms
- View Announcement (8K)
- View Document (2,623K)
Activities
| 1) | 2012: MARG changes name to GRG to reflect the expansion of the technology focus areas |
| 2) | 2010 MARG session - microRNA Profiling: Platform Comparison; microRNA Synthetic Reference Project - View Presentation (pdf) |
| 3) | 2010 MARG session: MARG Activities and New Wiki Discussion Forum - View Document (909K) |
| 4) | MARG wiki link - technology discussion forum - View Document |
| 5) | 2008 MARG Talk - 2008 MARG Talk |
| 6) | 2007 MARG Educational Session - View Document (6,826K) |
| 7) | At the national ABRF meeting the MARG convened a roundtable to discuss data comparability among commercial microarray platforms. A distinguished acadmic panel asked questions of bioinformaticists representing the microarray industry leaders. The discussion centered around 10 questions created by the academic panel and also addressed questions and comments from the meeting participants. Below are the transcripts from this meeting. - View Document (117K) - View Document (63K) |
Electronic Posters
| 1) | 2012 - GRG Study Poster: Effects of the Deepwater Horizon Oil Spill on the Atlantic Oysters - View Document (7,214K) |
| 2) | 2008 MARG Survey Poster - 2008 MARG Survey Poster - Survey Summary |
| 3) | 2009 MARG Study Poster - microRNA Profiling - View Document (620K) |
| 4) | 2007 MARG Research Project Poster - View Document (2,193K) |
| 5) | Evaluation of Small Sample Nucleic Acid Amplification Technologies for Gene Expression Profiling. For more information and requests for the slide presentation please email Herber Auer at auerh@ccri.net - View Document (50K) |
| 6) | Taking the Pulse of the Microarray Field: The Microarray Survey 2005. For more information and requests for the slide presentation please email kevin-knudtson@uiowa.edu - View Document (204K) |
| 7) | Comparing GeneChip Data Generated in Different Laboratories (Reid et al.) - View Document (224K) |
| 8) | A Current Profile of Microarray Laboratories: The Microarray Survey 2003 - View Document (418K) |
| 9) | Microarray Variability Study 2002 - View Document (1,486K) |
| 10) | Estimation and Reduction of the Bias Caused by RNA Degradation in Microarray Analysis - View Document (71K) |
| 11) | A Current Profile of Microarray Laboratories: The Microarray Survey 2001 - View Document (106K) |
| 12) | The State of the Art of Microarray Analysis: The Microarray Survey 1999 - View Document (184K) |
Membership History
| Member Name | Organization | Details |
|---|---|---|
| Mr Jason P Affourtit | The Jackson Laboratory | Member: 03/04 - 09/04 |
| Herbert Auer | IRB Barcelona | Chair: 02/05 - 02/06 Member: 03/04 - 02/05 |
| Don Baldwin | MicroPath ID Diagnostics | Member: 2015 - 2017 |
| Dr. Yongde Bao | Univ of Virginia Sch of Med | Ad hoc: 01/99 - 01/00 Ad hoc: 03/01 - 04/02 |
| Sean Blake | Global Biologics LLC | Member: 06/12 - 03/13 |
| Dr Andrew I Brooks | UMDNJ/Rutgers | Chair: 05/02 - 03/04 Member: 03/01 - 03/02 Ad hoc: 02/05 - 02/06 Co-Chair: 03/04 - 02/05 |
| Andrew Crenshaw | Broad Institute | Member: 01/11 - 01/13 |
| Dr Nancy D Denslow | Univ of Florida-Gainesville | EB Liaison: 02/05 - 03/09 |
| Chandi A. Griffin | Bionovo, Inc | Member: 01/99 - 02/01 Member: 04/02 - 02/05 Ad hoc: 02/05 - 02/07 Co-Chair: 03/01 - 03/02 |
| George S. Grills | Cornell University | Chair: 07/99 - 03/00 Member: 01/99 - 07/99 Ad hoc: 03/01 - 03/07 Co-Chair: 03/00 - 03/01 |
| Dr Christina A Harrington | Oregon Health & Science Univesity | MemberCo-Chair: 07/07 - 09/11 |
| Dr. Susan Hester | US Environmental Protection Agency | emeritus: 04/04 - 03/09 |
| Dr Dumitru A. Iacobas | Albert Einstein Coll of Med | Member: 03/01 - 06/03 Ad hoc: 06/03 - 03/04 Ad hoc: 08/04 - 08/04 |
| Kevin A. Johnson | The Jackson Laboratory | Member: 03/01 - 06/03 Ad hoc: 06/03 - 06/04 |
| Mrs. Cassie Keener | moved - no address | Member: 06/03 - 03/04 |
| Jelena Kühn-Georgijevic | ETH Zurich Functional Genomics Center | Member: 2015 - 2017 |
| Dr Greg Khitrov | Mount Sinai Medical Center | Member: 06/04 - 05/06 |
| Dr. Kevin L. Knudtson | Univ of Iowa | ChairCo-Chair: 03/01 - 04/02 Member: 05/02 - 02/05 Ad hoc: 02/05 - 02/07 Ad hoc: 01/00 - 03/01 |
| Dr Shawn E Levy | Vanderbilt University | Member: 11/02 - 03/04 |
| Dr Kathryn S Lilley | University of Cambridge | Member: 01/99 - 01/00 Ad hoc: 01/00 - 04/02 EB Liason: 03/04 - 02/05 |
| Mr. Aldo B Massimi | Albert Einstein College of Medicine | Member: 08/99 - 02/02 Ad hoc: 02/02 - 09/08 |
| Paul T Morrison | MBCF @ Dana-Farber Cancer Institute | EB Liason: 01/99 - 01/00 |
| Dr. Norma J. Nowak | SUNY Buffalo and RPCI | Member: 07/02 - 03/04 |
| Dr. Steven Potter | Children's Hospital Medical Center | Member: 07/07 - 03/09 |
| Dr Marco F Ramoni | Harvard Medical School | Member: 08/04 - 02/05 |
| Dr. Laura H Reid | Expression Analysis, Inc. | Memberretired: 05/05 - 03/08 |
| Caprice Rosato | Oregon State Univ | Member: 06/12 - 01/13 Member: 10/06 - 05/07 |
| Nalini Raghavachari | NIH | MEMBER: - 3/15 |
| Laurey Steinke | University of Nebraska Medical Center | EB Liason: 01/00 - 03/01 |
| Theodore W Thannhauser | USDA/Agricultural Research Service | EB Liason: 03/01 - 03/04 |
| Dr. Jay P. Tiesman | Procter & Gamble | Member: 06/04 - 01/09 |
| James Van Ee | Cornell University | Ad hoc: 01/99 - 04/01 |
| Agnes Viale | Memorial Sloan Kettering Cancer Ctr. | Member: 03/01 - 03/04 Member: 04/04 - 12/07 |
| Dr. Wei Wang | Cornell University | Member: 09/10 - 09/11 |
Publications
| 1) | A current profile of microarray laboratories: results of the 2000-2001 ABRF Microarray Research Group survey of laboratories using microarray technologies. J. Biomol. Tech. 2000; 11(4):225. Grills GS, Griffin C, Massimi A, Lilley K, Knudtson K, VanEe JI. |
| 2) | A profile of microarray laboratories. Proceedings of the Northwest Microarray Conference 2000. Grills GS, Griffin C, Lilley K, Massimi A, Bao Y, VanEe JI. |
| 3) | A Userís-Eye View of the Affymetrix Gene Expression System: The Early Days. J. Biomol. Tech. 1999; 10(2), 105. Sandmeyer, S. |
| 4) | A Userís-Eye View of the Affymetrix Gene Expression System: The Early Days. J. Biomolecular Techniques 10(2), 105 (abstract). 1999 Sandmeyer, S. |
| 5) | DNA Arrays: Technologies, Applications, and Data Analysis. J. Biomol. Tech. 2000; 11(1), 35 (abstract). Bumgarner, R. |
| 6) | DNA Arrays: Technologies, Applications, and Data Analysis. J. Biomolecular Techniques 11(1), 35 (abstract). 2000 Bumgarner, R. |
| 7) | Factors contributing to variability in DNA microarray results: the ABRF Microarray Research Group 2002 study. J. Biomol. Tech. 2002; 108. Knudtson KL, Griffin C, Brooks A, Iacobas A, Johnson K, Khitrov G, Lilley K, Massimi A, Viale A, Zhang W, Bao Y, Grills GS, Thaler H, Cox C. |
| 8) | Implementation of a Custom cDNA Microarray Facility at AECOM. J. Biomolecular Techniques 10(2), 105 (abstract). 1999 Massimi, A. |
| 9) | Implementation of a Custom cDNA Microarray Facility at AECOM. J. Biomol. Tech. 1999; 10(2), 105. Massimi, A. |
| 10) | Microarrays in a Shared Facility - Practical and Scientific Experiences from the Huntsman Cancer Institute. J. Biomolecular Techniques 10(2), 105 (abstract). 1999 Albertson, H. |
| 11) | Microarrays in a Shared Facility - Practical and Scientific Experiences from the Huntsman Cancer Institute. J. Biomol. Tech. 1999; 10(2), 105 (abstract) Albertson, H. |
| 12) | Problems and Pleasures of Implementing Microarray Technologies. J. Biomolecular Techniques 10(2), 105 (abstract). 1999 Grills, G. |
| 13) | Problems and pleasures of implementing microarray technologies. J. Biomol. Tech. 1999; 10(2):105 Grills, GS |
| 14) | The state of the art of microarray analysis: a profile of microarray laboratories. J. Biomol. Tech. 2000; 11(1):30. Grills GS, Griffin C, Heck D, Lilley K, Massimi A, Sandmeyer S, Bao Y, VanEe JI. |
| 15) | The State of the Art of Microarray Analysis: A Profile of MicroarrayLaboratories.J. Biomolecular Techniques11(1), 30 (abstract). 2000 Grills, G., Griffin, C., Heck, D., Lilley, K., Massimi, A., Sandmeyer, S., Bao, Y., and J.I. Van Ee |
| 16) | The state of the art of microarray research: results of the ABRF Microarray Research Group studies. 12th International Genome Sequencing and Analysis Conference 2000; 10. Grills GS, Burngarner R, Delrow J, Lilley K, Massimi A, Bao Y, Knudtson K, VanEe JI, Griffin C. |
| 17) | The State of the Art of Microarray Research: Results of the ABRF Microarray Research Group Studies.Microb. Comp. Genomics. 2000 Grills, G., Bumgarner, R., Delrow, J., Lilley, K. Massimi, A., Bao, Y., Knudtson, K., VanEe, J. and C. Griffin |