ABRF : Research Groups

DNA Sequencing Research Group (DSRG)

Our mission is to:

Promote and encourage communication and cooperation among member laboratories that carry out DNA sequencing.
Conduct studies to assess the capabilities of DNA sequencing laboratories and disseminate the findings of these while they are still accurate and relevant.
Provide materials that help member laboratories evaluate their performance and that promote excellence in DNA sequencing.
Provide a mechanism for sharing of information relevant to the organization, administration and financial management of DNA sequencing laboratories.

Sequencing Woes? Search the DSRG Sequencing Troubleshooting Web Resource!
Please visit the site at www.abrf.org/index.cfm/stwr.home

ABRF 2007
The DSRG poster from the annual meeting is now available - see below

Current Membership

Peter A. Schweitzer (Chair) - Cornell University
Mr. Doug Bintzler - Univ of Cincinnati
Ken Dewar - McGill University
Jan Kieleczawa - Wyeth Research
Dr. Sushmita Singh - BioMedical Genomics Center
Robert Steen - Harvard Medical School
Michael Zianni - Plant-Microbe Genomics Facility/Ohio State University
Ms. Michelle M Detwiler (EB Liaison) - Roswell Park Cancer Institute

Studies

1)	The DSRG 2008 study is now closed. Thank you to all the participants!

Activities

ABRF 2006 Satellite Meeting
    - View "DNA Sequencing Core Management" (pdf)
    - View "Commercial LIMS - dnaTools" (pdf)
    - View "In-house & Commercial LIMS: 4D, Finch" (pdf)
    - View "Comparison of Different LIMS" (pdf)
    - View "Failure Mode Analysis - HT Pipeline" (pdf)
    - View "Tips and Tweaks" (pdf)
    - View "Bisulfite Sequencing" (pdf)
    - View "CSCE" (pdf)
    - View "EcoTilling" (pdf)
    - View "BAC Fingerprinting" (pdf)
    - View "DNA Footprinting" (pdf)

Electronic Posters

1)	2008 Study: DSRG Difficult Template Sequencing Study - View Presentation(pdf) - View Poster (pdf) (233K)
2)	2007 Pilot Study: A Comparison of Variant Screening Strategies - DNA Sequencing and SNaPshot - View Poster (pdf)
3)	2006 Survey: DNA Sequencing Research Group: General Survey of DNA Sequencing Facilities - View Poster (pdf) - View Presentation (pdf) - View RG Presentation on Web Resource (pdf)
4)	2005 Resource: DSRG 2005 - DNA Sequencing Troubleshooting Guide - View Poster (pdf)
5)	2004 Resource: DSRG 2004 - A Web-Based User-Interactive DNA Sequencing Troubleshooting Resource. - View Poster (pdf)
6)	2003 Study - Part 2: Evaluation of Standardized Methods in the Analysis of Difficult DNA Repeat Sequences: A Follow Up to the ABRF 2003 Sequencing Survey. - View Poster (pdf) (338K)
7)	2003 Study: DNA Sequencing Research Group - Difficult Repeat Sequence Study 2003. - View Poster (pdf)
8)	2003 Survey: DNA Sequencing Research Group - General Survey 2003. - View Poster (pdf) (186K)
9)	2002 Study: DNA Sequencing Research Group (DSRG) - Single Nucleotide Polymorphism (SNP) Study Results. - View Poster (pdf)
10)	2001 Study: Effects of different DNA sequencing methods evaluated using a web based quality control resource: the ABRF DNA Sequence Research Group 2001 standard template study. - View Poster (pdf) (548K)
11)	2000/2001 Study: Update on the Continuation of the DNA Sequencing Research Group 2000 Study: An Evaluation of the Methods Used to Sequence and Isolate Bacterial Artificial Chromosomes. - View Poster (pdf)
12)	2000 Study: Preliminary Results from the DNA Sequencing Research Group (DSRG) 2000 Study: An Evaluation of Methods Used to Sequence and Isolate Bacterial Aritificial Chromosomes (BACS). - View Poster (pdf)
13)	2000 Survey: Summary of the Composition and Configuration of the Average DNA Sequencing Core Laboratory. - View Poster (pdf) - View Poster (html)
14)	1999 Study: Analysis of the Effects of Different DNA Sequencing Methods on Accuracy, Quality and Expansion of a Web-Based Sequencing Resource: Results of the ABRF DNA Sequencing Group 1999 Study. - View Second Poster (11/5/99) (pdf) - View First Poster (06/15/99) (html)
15)	1998 Study: Analysis of the Effects of Different DNA Sequencing Methods on Sequencing Quality, Creation of a Quality Control Resource, and Assessment of the Current State of the Art. - View Preliminary Results Poster (html) - View Final Poster (html)
16)	1997 Study: 2nd Annual ABRF DNA Sequence Research Committee Study: Effects of DMSO, Thermocycling and Editing on a Template with a 72% GC Rich Area. - View Poster (html)
17)	1996 Study: DNA Sequencing of a Moderately Difficult Template: Evaluation of Results from a Thermus thermophilus Unknown Test Sample. - View Poster (html)

Publications

1)	Wiebe, G.J., Pershad, R., Adam, D., Escobar, H., Lin, H., Knudtson, K.L., Needleman, D.S., Schweitzer, P.A., and T. Thannhauser (2005). DNA Sequencing Research Group Presentation and Open Discussion: The Development and Launch of the Web-based DNA Sequencing Troubleshooting Resource. ABRF 2005: Biomolecular Technologies: Discovery to Hypothesis. Journal of Biomolecular Techniques 16(1), 73 (abstract).
2)	Lin, H., Adam, D., Escobar, H., Needleman, D., Knudtson, K., Pershad, R., Schweitzer, P.A., Thannhauser, T. and G. Wiebe (2005). DNA Sequencing Research Group: DNA Sequencing Troubleshooting Guide. ABRF 2005: Biomolecular Technologies: Discovery to Hypothesis. Journal of Biomolecular Techniques 16(1), 74 (abstract).
3)	Lin, H., Escobar, H., Hawes, J.W., Needleman, D.S., Hunter, T., Jackson-Machelski, E., Knudtson, K.L., Pershad, R., Robertson, M. and G.J. Wiebe (2004). DSRG-2004 - a web-based, user-interactive DNA sequencing troubleshooting resource. ABRF 2004: Integrating Technologies in Proteomics and Genomics. Journal of Biomolecular Techniques 15(1), 12 (abstract).
4)	Pershad, R., Lyons, R., and G. Grills (2004). Data tracking and quality control in high throughput DNA sequencing: the ABRF DNA Sequencing Research Group (DSRG) 2004 applied technology and informatics tutorial. ABRF 2004: Integrating Technologies in Proteomics and Genomics. Journal of Biomolecular Techniques 15(1), 82 (abstract).
5)	Escobar, H., Hawes, J.W., Lin, H., Needleman, D.S., Hunter, T., Jackson-Machelski, E., Knudtson, K.L., Pershad, R., Robertson, M. and G.J. Wiebe (2004). DNA Sequencing Research Group (DSRG) presentation and open discussion: a web-based DNA sequencing troubleshooting resource. ABRF 2004: Integrating Technologies in Proteomics and Genomics. Journal of Biomolecular Techniques 15(1), 84 (abstract).
6)	Wiebe, G.J., Pershad, R., Escobar, H., Hawes, J.W., Hunter, T., Jackson-Machelski, E., Knudtson, K.L., Robertson, M. and T.W. Thannhauser (2003). DNA Sequencing Research Group (DSRG) 2003 - A general survey of core DNA sequencing facilities. Journal of Biomolecular Techniques 14(3), 231-237 (research group committee report). - View PDF (166K)
7)	Hawes, J.W., Grills, G.S., Jackson-Machelski, E., Escobar, H., Hunter, T., Knudtson, K.L., Pershad, R., Spicer, D., and T.W. Thannhauser (2003). DSRG 2003 study: evaluation of methods for analysis of difficult DNA repeat sequences. ABRF 2003: Translating Biology Using Proteomics and Functional Genomics. Journal of Biomolecular Techniques 14(1), 55 (abstract).
8)	Pershad, R., Hawes, J., Hunter, T., Jackson-Machelski, E., Knudtson, K., Escobar, H., Spicer, D., Grills, G., and T. Thannhauser (2003). The state of the art of DNA sequencing laboratories. ABRF 2003: Translating Biology Using Proteomics and Functional Genomics. Journal of Biomolecular Techniques 14(1), 55 (abstract).
9)	Hunter, T.C., Escobar, H., Grills, G., Hawes, J., Jackson-Machelski, E., Knudtson, K., Pershad, R., and T. Thannhauser (2003). DNA Sequencing Research Group roundtable discussion. ABRF 2003: Translating Biology Using Proteomics and Functional Genomics. Journal of Biomolecular Techniques 14(1), 105 (abstract).
10)	Jackson-Machelski, E., Hunter, T.C., Leviten, D., Pershad, R., and D. Spicer (2001). DNA Sequencing Roundtable Discussion. ABRF 2002: Biomolecular Technologies: Tools for Discovery in Proteomics and Genomics. Journal of Biomolecular Techniques 12(4), 91 (abstract).
11)	Leviten, D., Hawes, J., Hunter, T., Jackson-Machelski, E., Pershad, R., Spicer, D., Bartley, D., Knudtson, K.L., Grills, G., Robertson, M., VanEe, J., and T. Thannhauser (2001). DNA Sequencing Research Group (DSRG) single nucleotide polymorphism (SNP) study 2002 results. ABRF 2002: Biomolecular Technologies: Tools for Discovery in Proteomics and Genomics. Journal of Biomolecular Techniques 12(4), 135 (abstract).
12)	Hawes, J., Bartley, D., Hunter, T.C., Jackson-Machelski, E., Leviten, D., Pershad, R., Robertson, M., and D. Spicer (2001). DNA Sequencing Research Group (DSRG) 2001-2002 General Survey: A snapshot of the composition and configuration of the current DNA sequencing core facility. ABRF 2002: Biomolecular Technologies: Tools for Discovery in Proteomics and Genomics. Journal of Biomolecular Techniques 12(4), 139 (abstract).
13)	Thannhauser, T., Hall, L.S., Hawes, J., Hunter, T., Jackson-Machelski, E. , Knudtson, K. , Leviten, D., and M.A. Robertson (2000). Update on the continuation of the DNA Sequencing Research Group 2000 Study: an evaluation of methods used to sequence and isolate bacterial artificial chromosomes. ABRF 2001: The New Biology: Technologies for Resolving Macromolecular Communications. Journal of Biomolecular Techniques 11(4),189 (abstract).
14)	Robertson, M.A., Hall, L., Hawes, J., Hunter, T., Jackson-Machelski, E., Knudtson, K., and D. Leviten (2000). Preliminary results from the DNA Sequencing Research Group 2001 Study: factors that affect the sequencing and detection of mixed base sequences in PCR products. ABRF 2001: The New Biology: Technologies for Resolving Macromolecular Communications. Journal of Biomolecular Techniques 11(4), 225 (abstract).
15)	M. A. Robertson (2000). Advances in DNA sequencing. ABRF 2001: The New Biology: Technologies for Resolving Macromolecular Communications. Journal of Biomolecular Techniques 11(4), 230 (abstract).
16)	Thannhauser, T., Grills, G., Hardin, S., Leviten, D., Robertson, M., and J.I. Van Ee (2000). Preliminary results from the DNA Sequencing Research Group 2000 Study, Part 1: Factors that Affect the Sequencing Performance of a Standard BAC Template. ABRF 2000: From Singular to Global Analyses of Biological Systems. Journal of Biomolecular Techniques 11(1), 30 (abstract).
17)	Thannhauser, T., Grills, G., Hardin, S., Leviten, D., Robertson, M., and J.I. Van Ee (2000). Preliminary Results from the DNA Sequencing Research Group 2000 Study Part 2: A Comparison of Methods used to Isolate BAC Templates in Preparation for Sequencing. ABRF 2000: From Singular to Global Analyses of Biological Systems. Journal of Biomolecular Techniques 11(1), 34 (abstract).
18)	Thannhauser, T., Adams, P.S., Dolejsi, M.K., Grills, G., Hardin, S., and M. Robertson (2000). Effects of Different DNA Sequencing Methods on Accuracy, Quality and Expansion of a Web-Based Sequencing Resource: Results of the ABRF DNA Sequencing Group 1999 Study. ABRF 2000: From Singular to Global Analyses of Biological Systems. Journal of Biomolecular Techniques 11(1), 56 (abstract).
19)	Van Ee, J.I., Grills, G., Hardin, S., Leviten, D., Robertson, M., and T. Thannhauser (2000). Preliminary results from the DNA Sequencing Research Group 2000 Study: An Evaluation of Methods used to Sequence and Isolate Bacterial Artificial Chomosomes (BACs). ABRF 2000: From Singular to Global Analyses of Biological Systems. Journal of Biomolecular Techniques 11(1), 56 (abstract).
20)	Leviten, D., Grills, G., Hardin, S., Robertson, M., and T. Thannhauser (2000). Results from the DNA Sequencing Research Group’s General Survey of Core Facilities: A Detailed Summary of the Composition and Configuration of the Average DNA Sequencing Core Laboratory. ABRF 2000: From Singular to Global Analyses of Biological Systems. Journal of Biomolecular Techniques 11(1), 56 (abstract).
21)	C.W. Naeve and P.S. Adams (1999) "Nucleic Acids" in M.C. Flickinger and S.W. Drew, eds., Encyclopedia of Bioprocess Technology, John Wiley & Sons, New York. pp. 2089-2120.
22)	Adams, P.S., Dolejsi, M.K., Grills, G., McMinimy, D., Morrison, P., Rush, J., Goff, S., Milnamow, M., Morgan, A., Karlovitz, M.A., Dial, C.E., and S. Hardin (1998). An Analysis of Techniques Used to Improve the Accuracy of Automated DNA Sequencing of a GC-Rich Template. Journal of Biomolecular Techniques 9(4), 9-18. - View HTML
23)	Adams, P.S., M.K. Dolejsi, S. Hardin, S. Mische, B. Nanthakamur, H. Riethman, J. Rush, and P. Morrison. (1996). DNA Sequencing of a Moderately Difficult Template: Evaluation of the Results from a Thermus thermophilus Unknown Test Sample. BioTechniques 21, 678.
24)	DSRG Published Abstracts (prior to 2000) - View List (html)

Membership History

Member Name	Organization	Details
Debbie Adam	University of British Columbia	Chair: 03/06 - 03/07 Member: 03/04 - 02/06 Ad hoc: 04/07 - 02/08
Pamela Scott Adams	Trudeau Institute	Chair: 10/96 - 03/98 Member: 01/95 - 10/99 EB Liaison: 01/06 - 04/07
Duane Bartley	John Hopkins Univ	Ad hoc: 01/98 - 03/02
Greg Buck	Virginia Commonwealth Univ	Ad hoc: 01/97 - 01/98
MaryKay Dolejsi		Member: 06/96 - 06/99
Helaman Escobar	University of Utah	Chair: 06/03 - 03/04 Member: 05/02 - 02/06 Ad hoc: 03/06 - 04/07 Assistant Chair: 02/03 - 06/03
Matthew Gray	University of S. California	Member: 03/04 - 10/04
George S. Grills	Cornell University	Chair: 04/98 - 04/99 Member: 01/97 - 01/00 Ad hoc: 01/00 - 03/04
Karl Hager	Yale Univ	Ad hoc: 01/98 - 01/99
Lawrence Hall		Member: 03/99 - 03/01
Dr Susan H Hardin	University of Houston	Member: 01/95 - 01/00 EB Liaison: 01/05 - 12/05
Dr. John W. Hawes	Miami University	Chair: 03/02 - 02/03 Member: 02/01 - 02/03 Ad hoc: 02/03 - 03/04
Tim C Hunter	Vermont Cancer Ctr	Member: 03/00 - 02/03 Ad hoc: 02/03 - 03/04
Emily Jackson-Machelski		Member: 03/00 - 02/03 Ad hoc: 02/03 - 03/04
Dr. Kevin L. Knudtson	Univ of Iowa	Member: 03/00 - 03/03 Ad hoc: 03/03 - 02/05
Dina Leviten	ICOS Corp	Chair: 11/00 - 03/02 Member: 01/99 - 03/02 Ad hoc: 03/02 - 08/02
Dr Kathryn S Lilley	University of Cambridge	Ad hoc: 01/99 - 01/00
Heather Lin	University of Utah	Member: 03/03 - 02/05
Dr. Mark O. Lively	Wake Forest Univ. Sch. of Med.	EB Liason: 01/99 - 01/00
Douglas McMinimy	The Jackson Laboratory	Member: 01/96 - 01/98
Sheena Mische		Member: 03/95 - 03/96
MBCF- Paul T Morrison	MBCF @ Dana-Farber Cancer Institute	Chair: 01/95 - 10/96 Member: 01/95 - 01/98 Ad hoc: 01/98 - 01/00
Betsy Nanthakumar		Member: 03/95 - 03/97
Dr. David S. Needleman	USDA/ARS Eastern Regional Research Center	Member: 03/03 - 02/06 Ad hoc: 02/06 - 02/08
Dr. Ronald L. Niece	Research Resources & Technologies	Ad hoc: 01/99 - 01/00
Rashmi Pershad	UT MD Anderson Cancer Ctr	Chair: 02/03 - 05/03 Member: 03/01 - 03/04 Ad hoc: 03/04 - 02/06 Assistant Chair: 06/03 - 03/04
Harold Riethman	Wistar Institute	Member: 03/95 - 03/98
Margaret Robertson	Ernest Gallo Clinic and Research Center, UCSF	Chair: 04/00 - 11/00 Member: 01/99 - 11/00 Ad hoc: 02/01 - 03/02 EB liason: 02/03 - 03/04
Dr. John Rush	Cell Signaling Technology	Ad hoc: 01/95 - 01/98
Peter A. Schweitzer	Cornell University	Member: 03/04 - 02/06
Douglas Spicer	Prolinx Inc.	Member: 08/01 - 10/02
Theodore W Thannhauser	United States Department of Agriculture/Agricultural Research Service	Chair: 04/99 - 04/00 Member: 01/98 - 01/01 EB Liason: 03/04 - 02/05
James Van Ee	Cornell University	Ad hoc: 01/99 - 05/01
Glenis J. Wiebe	University of Alberta	Chair: 03/04 - 02/06 Member: 11/02 - 02/06 Ad hoc: 02/06 - 04/07