The genomics education partnership

Successful integration of research into laboratory classes at a diverse group of undergraduate institutions

Christopher D. Shaffer, Consuelo Alvarez, Cheryl Bailey, Daron Barnard, Satish Bhalla, Chitra Chandrasekaran, Vidya Chandrasekaran, Hui Min Chung, Douglas R. Dorer, Chunguang Du, Todd T. Eckdahl, Jeff L. Poet, Donald Frohlich, Anya L. Goodman, Yuying Gosser, Charles Hauser, Laura L.M. Hoopes, Diana Johnson, Christopher J. Jones, Marian Kaehler & 33 others Nighat Kokan, Olga R. Kopp, Gary A. Kuleck, Gerard McNeil, Robert Moss, Jennifer L. Myka, Alexis Nagengast, Robert Morris, Paul J. Overvoorde, Elizabeth Shoop, Susan Parrish, Kelynne Reed, E. Gloria Regisford, Dennis Revie, Anne G. Rosenwald, Ken Saville, Stephanie Schroeder, Mary Shaw, Gary Skuse, Christopher Smith, Mary Smith, Eric P. Spana, Mary Spratt, Joyce Stamm, Jeff S. Thompson, Matthew Wawersik, Barbara A. Wilson, Jim Youngblom, Wilson Leung, Jeremy Buhler, Elaine R. Mardis, David Lopatto, Sarah C.R. Elgin

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78 Citations (Scopus)

Abstract

Genomics is not only essential for students to understand biology but also provides unprecedented opportunities for undergraduate research. The goal of the Genomics Education Partnership (GEP), a collaboration between a growing number of colleges and universities around the country and the Department of Biology and Genome Center of Washington University in St. Louis, is to provide such research opportunities. Using a versatile curriculum that has been adapted to many different class settings, GEP undergraduates undertake projects to bring draft-quality genomic sequence up to high quality and/or participate in the annotation of these sequences. GEP undergraduates have improved more than 2 million bases of draft genomic sequence from several species of Drosophila and have produced hundreds of gene models using evidence-based manual annotation. Students appreciate their ability to make a contribution to ongoing research, and report increased independence and a more active learning approach after participation in GEP projects. They show knowledge gains on pre- and postcourse quizzes about genes and genomes and in bioinformatic analysis. Participating faculty also report professional gains, increased access to genomics-related technology, and an overall positive experience. We have found that using a genomics research project as the core of a laboratory course is rewarding for both faculty and students.

Original languageEnglish
Pages (from-to)55-69
Number of pages15
JournalCBE Life Sciences Education
Volume9
Issue number1
DOIs
StatePublished - 1 Jan 2010

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Genomics
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Problem-Based Learning
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Bioinformatics
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Shaffer, Christopher D. ; Alvarez, Consuelo ; Bailey, Cheryl ; Barnard, Daron ; Bhalla, Satish ; Chandrasekaran, Chitra ; Chandrasekaran, Vidya ; Chung, Hui Min ; Dorer, Douglas R. ; Du, Chunguang ; Eckdahl, Todd T. ; Poet, Jeff L. ; Frohlich, Donald ; Goodman, Anya L. ; Gosser, Yuying ; Hauser, Charles ; Hoopes, Laura L.M. ; Johnson, Diana ; Jones, Christopher J. ; Kaehler, Marian ; Kokan, Nighat ; Kopp, Olga R. ; Kuleck, Gary A. ; McNeil, Gerard ; Moss, Robert ; Myka, Jennifer L. ; Nagengast, Alexis ; Morris, Robert ; Overvoorde, Paul J. ; Shoop, Elizabeth ; Parrish, Susan ; Reed, Kelynne ; Regisford, E. Gloria ; Revie, Dennis ; Rosenwald, Anne G. ; Saville, Ken ; Schroeder, Stephanie ; Shaw, Mary ; Skuse, Gary ; Smith, Christopher ; Smith, Mary ; Spana, Eric P. ; Spratt, Mary ; Stamm, Joyce ; Thompson, Jeff S. ; Wawersik, Matthew ; Wilson, Barbara A. ; Youngblom, Jim ; Leung, Wilson ; Buhler, Jeremy ; Mardis, Elaine R. ; Lopatto, David ; Elgin, Sarah C.R. / The genomics education partnership : Successful integration of research into laboratory classes at a diverse group of undergraduate institutions. In: CBE Life Sciences Education. 2010 ; Vol. 9, No. 1. pp. 55-69.
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abstract = "Genomics is not only essential for students to understand biology but also provides unprecedented opportunities for undergraduate research. The goal of the Genomics Education Partnership (GEP), a collaboration between a growing number of colleges and universities around the country and the Department of Biology and Genome Center of Washington University in St. Louis, is to provide such research opportunities. Using a versatile curriculum that has been adapted to many different class settings, GEP undergraduates undertake projects to bring draft-quality genomic sequence up to high quality and/or participate in the annotation of these sequences. GEP undergraduates have improved more than 2 million bases of draft genomic sequence from several species of Drosophila and have produced hundreds of gene models using evidence-based manual annotation. Students appreciate their ability to make a contribution to ongoing research, and report increased independence and a more active learning approach after participation in GEP projects. They show knowledge gains on pre- and postcourse quizzes about genes and genomes and in bioinformatic analysis. Participating faculty also report professional gains, increased access to genomics-related technology, and an overall positive experience. We have found that using a genomics research project as the core of a laboratory course is rewarding for both faculty and students.",
author = "Shaffer, {Christopher D.} and Consuelo Alvarez and Cheryl Bailey and Daron Barnard and Satish Bhalla and Chitra Chandrasekaran and Vidya Chandrasekaran and Chung, {Hui Min} and Dorer, {Douglas R.} and Chunguang Du and Eckdahl, {Todd T.} and Poet, {Jeff L.} and Donald Frohlich and Goodman, {Anya L.} and Yuying Gosser and Charles Hauser and Hoopes, {Laura L.M.} and Diana Johnson and Jones, {Christopher J.} and Marian Kaehler and Nighat Kokan and Kopp, {Olga R.} and Kuleck, {Gary A.} and Gerard McNeil and Robert Moss and Myka, {Jennifer L.} and Alexis Nagengast and Robert Morris and Overvoorde, {Paul J.} and Elizabeth Shoop and Susan Parrish and Kelynne Reed and Regisford, {E. Gloria} and Dennis Revie and Rosenwald, {Anne G.} and Ken Saville and Stephanie Schroeder and Mary Shaw and Gary Skuse and Christopher Smith and Mary Smith and Spana, {Eric P.} and Mary Spratt and Joyce Stamm and Thompson, {Jeff S.} and Matthew Wawersik and Wilson, {Barbara A.} and Jim Youngblom and Wilson Leung and Jeremy Buhler and Mardis, {Elaine R.} and David Lopatto and Elgin, {Sarah C.R.}",
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Shaffer, CD, Alvarez, C, Bailey, C, Barnard, D, Bhalla, S, Chandrasekaran, C, Chandrasekaran, V, Chung, HM, Dorer, DR, Du, C, Eckdahl, TT, Poet, JL, Frohlich, D, Goodman, AL, Gosser, Y, Hauser, C, Hoopes, LLM, Johnson, D, Jones, CJ, Kaehler, M, Kokan, N, Kopp, OR, Kuleck, GA, McNeil, G, Moss, R, Myka, JL, Nagengast, A, Morris, R, Overvoorde, PJ, Shoop, E, Parrish, S, Reed, K, Regisford, EG, Revie, D, Rosenwald, AG, Saville, K, Schroeder, S, Shaw, M, Skuse, G, Smith, C, Smith, M, Spana, EP, Spratt, M, Stamm, J, Thompson, JS, Wawersik, M, Wilson, BA, Youngblom, J, Leung, W, Buhler, J, Mardis, ER, Lopatto, D & Elgin, SCR 2010, 'The genomics education partnership: Successful integration of research into laboratory classes at a diverse group of undergraduate institutions', CBE Life Sciences Education, vol. 9, no. 1, pp. 55-69. https://doi.org/10.1187/09-11-0087

The genomics education partnership : Successful integration of research into laboratory classes at a diverse group of undergraduate institutions. / Shaffer, Christopher D.; Alvarez, Consuelo; Bailey, Cheryl; Barnard, Daron; Bhalla, Satish; Chandrasekaran, Chitra; Chandrasekaran, Vidya; Chung, Hui Min; Dorer, Douglas R.; Du, Chunguang; Eckdahl, Todd T.; Poet, Jeff L.; Frohlich, Donald; Goodman, Anya L.; Gosser, Yuying; Hauser, Charles; Hoopes, Laura L.M.; Johnson, Diana; Jones, Christopher J.; Kaehler, Marian; Kokan, Nighat; Kopp, Olga R.; Kuleck, Gary A.; McNeil, Gerard; Moss, Robert; Myka, Jennifer L.; Nagengast, Alexis; Morris, Robert; Overvoorde, Paul J.; Shoop, Elizabeth; Parrish, Susan; Reed, Kelynne; Regisford, E. Gloria; Revie, Dennis; Rosenwald, Anne G.; Saville, Ken; Schroeder, Stephanie; Shaw, Mary; Skuse, Gary; Smith, Christopher; Smith, Mary; Spana, Eric P.; Spratt, Mary; Stamm, Joyce; Thompson, Jeff S.; Wawersik, Matthew; Wilson, Barbara A.; Youngblom, Jim; Leung, Wilson; Buhler, Jeremy; Mardis, Elaine R.; Lopatto, David; Elgin, Sarah C.R.

In: CBE Life Sciences Education, Vol. 9, No. 1, 01.01.2010, p. 55-69.

Research output: Contribution to journalArticleResearchpeer-review

TY - JOUR

T1 - The genomics education partnership

T2 - Successful integration of research into laboratory classes at a diverse group of undergraduate institutions

AU - Shaffer, Christopher D.

AU - Alvarez, Consuelo

AU - Bailey, Cheryl

AU - Barnard, Daron

AU - Bhalla, Satish

AU - Chandrasekaran, Chitra

AU - Chandrasekaran, Vidya

AU - Chung, Hui Min

AU - Dorer, Douglas R.

AU - Du, Chunguang

AU - Eckdahl, Todd T.

AU - Poet, Jeff L.

AU - Frohlich, Donald

AU - Goodman, Anya L.

AU - Gosser, Yuying

AU - Hauser, Charles

AU - Hoopes, Laura L.M.

AU - Johnson, Diana

AU - Jones, Christopher J.

AU - Kaehler, Marian

AU - Kokan, Nighat

AU - Kopp, Olga R.

AU - Kuleck, Gary A.

AU - McNeil, Gerard

AU - Moss, Robert

AU - Myka, Jennifer L.

AU - Nagengast, Alexis

AU - Morris, Robert

AU - Overvoorde, Paul J.

AU - Shoop, Elizabeth

AU - Parrish, Susan

AU - Reed, Kelynne

AU - Regisford, E. Gloria

AU - Revie, Dennis

AU - Rosenwald, Anne G.

AU - Saville, Ken

AU - Schroeder, Stephanie

AU - Shaw, Mary

AU - Skuse, Gary

AU - Smith, Christopher

AU - Smith, Mary

AU - Spana, Eric P.

AU - Spratt, Mary

AU - Stamm, Joyce

AU - Thompson, Jeff S.

AU - Wawersik, Matthew

AU - Wilson, Barbara A.

AU - Youngblom, Jim

AU - Leung, Wilson

AU - Buhler, Jeremy

AU - Mardis, Elaine R.

AU - Lopatto, David

AU - Elgin, Sarah C.R.

PY - 2010/1/1

Y1 - 2010/1/1

N2 - Genomics is not only essential for students to understand biology but also provides unprecedented opportunities for undergraduate research. The goal of the Genomics Education Partnership (GEP), a collaboration between a growing number of colleges and universities around the country and the Department of Biology and Genome Center of Washington University in St. Louis, is to provide such research opportunities. Using a versatile curriculum that has been adapted to many different class settings, GEP undergraduates undertake projects to bring draft-quality genomic sequence up to high quality and/or participate in the annotation of these sequences. GEP undergraduates have improved more than 2 million bases of draft genomic sequence from several species of Drosophila and have produced hundreds of gene models using evidence-based manual annotation. Students appreciate their ability to make a contribution to ongoing research, and report increased independence and a more active learning approach after participation in GEP projects. They show knowledge gains on pre- and postcourse quizzes about genes and genomes and in bioinformatic analysis. Participating faculty also report professional gains, increased access to genomics-related technology, and an overall positive experience. We have found that using a genomics research project as the core of a laboratory course is rewarding for both faculty and students.

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