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Title: Biological and Environmental Research Exascale Requirements Review. An Office of Science review sponsored jointly by Advanced Scientific Computing Research and Biological and Environmental Research, March 28-31, 2016, Rockville, Maryland

Abstract

Understanding the fundamentals of genomic systems or the processes governing impactful weather patterns are examples of the types of simulation and modeling performed on the most advanced computing resources in America. High-performance computing and computational science together provide a necessary platform for the mission science conducted by the Biological and Environmental Research (BER) office at the U.S. Department of Energy (DOE). This report reviews BER’s computing needs and their importance for solving some of the toughest problems in BER’s portfolio. BER’s impact on science has been transformative. Mapping the human genome, including the U.S.-supported international Human Genome Project that DOE began in 1987, initiated the era of modern biotechnology and genomics-based systems biology. And since the 1950s, BER has been a core contributor to atmospheric, environmental, and climate science research, beginning with atmospheric circulation studies that were the forerunners of modern Earth system models (ESMs) and by pioneering the implementation of climate codes onto high-performance computers. See http://exascaleage.org/ber/ for more information.

Authors:
 [1];  [2];  [3];  [1];  [4];  [5];  [1];  [1];  [6];  [5];  [3];  [3];  [5];  [6];  [6];  [7];  [8];  [9];  [1];  [10] more »;  [11];  [11];  [12];  [1];  [13];  [1];  [14];  [1];  [6];  [8];  [8];  [8];  [8];  [6];  [15];  [16];  [1];  [1];  [17];  [18];  [19];  [11];  [20];  [1];  [6];  [21];  [22];  [23];  [1];  [24];  [22];  [9];  [25];  [8];  [16];  [26];  [16];  [6];  [1];  [22];  [27];  [3];  [6];  [28];  [7];  [1];  [1];  [1];  [22];  [29];  [8];  [1];  [30];  [23];  [31];  [3];  [9];  [6];  [1];  [8];  [23];  [11];  [8];  [11];  [32];  [11];  [2];  [33];  [34];  [1];  [24];  [8];  [3];  [35];  [1];  [1];  [36];  [22];  [37];  [19];  [36];  [1];  [6];  [38];  [1];  [6];  [1];  [1];  [6];  [6];  [22];  [39];  [8];  [8];  [22];  [24];  [1];  [1];  [16];  [8];  [40];  [8];  [6];  [6];  [1];  [41];  [42];  [8];  [16];  [8];  [1];  [22];  [9];  [30];  [1];  [43];  [8];  [2];  [6];  [2];  [1];  [11];  [30];  [23] « less
  1. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
  2. Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)
  3. Argonne National Lab. (ANL), Argonne, IL (United States)
  4. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). National Energy Research Scientific Computing Center (NERSC)
  5. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States). Esnet
  6. Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
  7. Georgia Inst. of Technology, Atlanta, GA (United States)
  8. Pacific Northwest National Lab. (PNNL), Richland, WA (United States)
  9. Pacific Northwest National Lab. (PNNL), Richland, WA (United States). EMSL
  10. National Center for Atmospheric Research, Boulder, CO (United States)
  11. Brookhaven National Lab. (BNL), Upton, NY (United States)
  12. New York Univ. (NYU), NY (United States)
  13. Yale Univ., New Haven, CT (United States)
  14. (Ben) [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
  15. Univ. of Houston, Houston, TX (United States)
  16. Sandia National Lab. (SNL-NM), Albuquerque, NM (United States)
  17. National Oceanic and Atmospheric Administration (NOAA), Boulder, CO (United States)
  18. National Renewable Energy Lab. (NREL), Golden, CO (United States)
  19. Sandia National Lab. (SNL-CA), Livermore, CA (United States)
  20. Stanford Univ., Stanford, CA (United States)
  21. Iowa State Univ., Ames, IA (United States)
  22. Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
  23. Stony Brook Univ., Stony Brook, NY (United States)
  24. Naval Postgraduate School, Monterey, CA (United States)
  25. Univ. of New Hampshire, Durham, NH (United States)
  26. USDA Forest Service, Washington, D.C. (United States)
  27. Univ. of Texas-Austin, Austin, TX (United States)
  28. Univ. of California, San Francisco, CA (United States)
  29. Washington State Univ., Pullman, WA (United States)
  30. Univ. of California, Berkeley, CA (United States)
  31. Univ. of California, Santa Cruz, CA (United States)
  32. Univ. of Connecticut, Storrs, CT (United States)
  33. Univ. of Toronto, Toronto, ON (Canada)
  34. Pennsylvania State Univ., University Park, PA (United States)
  35. Intel Corp., Santa Clara, CA (United States)
  36. Center for Molecular Medicine and Therapeutics, Vancouver, BC (Canada)
  37. Univ. of Cambridge (United Kingdom)
  38. Univ. of California, Santa Barbara, CA (United States)
  39. Colorado State Univ., Fort Collins, CO (United States)
  40. Intel, Mountain View, CA (United States)
  41. Boston Univ., Boston, MA (United States)
  42. Univ. of California, Davis, CA (United States)
  43. NCAR/Univ. of Colorado, Boulder, CO (United States)
Publication Date:
Research Org.:
US Department of Energy, Washington, DC (United States). Advanced Scientific Computing Research (SC-21)
Sponsoring Org.:
USDOE Office of Science (SC), Advanced Scientific Computing Research (SC-21); USDOE Office of Science (SC), Biological and Environmental Research (BER) (SC-23)
OSTI Identifier:
1375720
Resource Type:
Technical Report
Country of Publication:
United States
Language:
English
Subject:
54 ENVIRONMENTAL SCIENCES

Citation Formats

Arkin, Adam, Bader, David C., Coffey, Richard, Antypas, Katie, Bard, Deborah, Dart, Eli, Dosanjh, Sudip, Gerber, Richard, Hack, James, Monga, Inder, Papka, Michael E., Riley, Katherine, Rotman, Lauren, Straatsma, Tjerk, Wells, Jack, Aluru, Srinivas, Andersen, Amity, Aprá, Edoardo, Azad, Ariful, Bates, Susan, Blaby, Ian, Blaby-Haas, Crysten, Bonneau, Rich, Bowen, Ben, Bradford, Mark A., Brodie, Eoin, Brown, James, Buluc, Aydin, Bernholdt, David, Bylaska, Eric, Calvin, Kate, Cannon, Bill, Chen, Xingyuan, Cheng, Xiaolin, Cheung, Margaret, Chowdhary, Kenny, Colella, Phillip, Collins, Bill, Compo, Gil, Crowley, Mike, Debusschere, Bert, D’Imperio, Nicholas, Dror, Ron, Egan, Rob, Evans, Katherine, Friedberg, Iddo, Fyke, Jeremy, Gao, Zheng, Georganas, Evangelos, Giraldo, Frank, Gnanakaran, Gnana, Govind, Niri, Grandy, Stuart, Gustafson, Bill, Hammond, Glenn, Hargrove, William, Heroux, Michael, Hoffman, Forrest, Hofmeyr, Steven, Hunke, Elizabeth, Jackson, Charles, Jacob, Rob, Jacobson, Dan, Jacobson, Matt, Jain, Chirag, Johansen, Hans, Johnson, Jeff, Jones, Andy, Jones, Phil, Kalyanaraman, Ananth, Kang, Senghwa, King, Eric, Koanantakool, Penporn, Kollias, Pavlos, Kopera, Michal, Kotamarthi, Rao, Kowalski, Karol, Kumar, Jitendra, Kyrpides, Nikos, Leung, Ruby, Li, Xiaolin, Lin, Wuyin, Link, Robert, Liu, Yangang, Loew, Leslie, Luke, Edward, Ma, Hsi -Yen, Mahadevan, Radhakrishnan, Maranas, Costas, Martin, Daniel, Maslowski, Wieslaw, McCue, Lee Ann, McInnes, Lois Curfman, Mills, Richard, Molins Rafa, Sergi, Morozov, Dmitriy, Mostafavi, Sara, Moulton, David J., Mourao, Zenaida, Najm, Habib, Ng, Bernard, Ng, Esmond, Norman, Matt, Oh, Sang -Yun, Oliker, Leonid, Pan, Chongle, Pass, Rebecca, Pau, George S. H., Petridis, Loukas, Prakash, Giri, Price, Stephen, Randall, David, Renslow, Ryan, Riihimaki, Laura, Ringler, Todd, Roberts, Andrew, Rokhsar, Dan, Ruebel, Oliver, Salinger, Andrew, Scheibe, Tim, Schulz, Roland, Sivaraman, Chitra, Smith, Jeremy, Sreepathi, Sarat, Steefel, Carl, Talbot, Jenifer, Tantillo, D. J., Tartakovsky, Alex, Taylor, Mark, Taylor, Ronald, Trebotich, David, Urban, Nathan, Valiev, Marat, Wagner, Allon, Wainwright, Haruko, Wieder, Will, Wiley, Steven, Williams, Dean, Worley, Pat, Xie, Shaocheng, Yelick, Kathy, Yoo, Shinjae, Yosef, Niri, and Zhang, Minghua. Biological and Environmental Research Exascale Requirements Review. An Office of Science review sponsored jointly by Advanced Scientific Computing Research and Biological and Environmental Research, March 28-31, 2016, Rockville, Maryland. United States: N. p., 2016. Web. doi:10.2172/1375720.
Arkin, Adam, Bader, David C., Coffey, Richard, Antypas, Katie, Bard, Deborah, Dart, Eli, Dosanjh, Sudip, Gerber, Richard, Hack, James, Monga, Inder, Papka, Michael E., Riley, Katherine, Rotman, Lauren, Straatsma, Tjerk, Wells, Jack, Aluru, Srinivas, Andersen, Amity, Aprá, Edoardo, Azad, Ariful, Bates, Susan, Blaby, Ian, Blaby-Haas, Crysten, Bonneau, Rich, Bowen, Ben, Bradford, Mark A., Brodie, Eoin, Brown, James, Buluc, Aydin, Bernholdt, David, Bylaska, Eric, Calvin, Kate, Cannon, Bill, Chen, Xingyuan, Cheng, Xiaolin, Cheung, Margaret, Chowdhary, Kenny, Colella, Phillip, Collins, Bill, Compo, Gil, Crowley, Mike, Debusschere, Bert, D’Imperio, Nicholas, Dror, Ron, Egan, Rob, Evans, Katherine, Friedberg, Iddo, Fyke, Jeremy, Gao, Zheng, Georganas, Evangelos, Giraldo, Frank, Gnanakaran, Gnana, Govind, Niri, Grandy, Stuart, Gustafson, Bill, Hammond, Glenn, Hargrove, William, Heroux, Michael, Hoffman, Forrest, Hofmeyr, Steven, Hunke, Elizabeth, Jackson, Charles, Jacob, Rob, Jacobson, Dan, Jacobson, Matt, Jain, Chirag, Johansen, Hans, Johnson, Jeff, Jones, Andy, Jones, Phil, Kalyanaraman, Ananth, Kang, Senghwa, King, Eric, Koanantakool, Penporn, Kollias, Pavlos, Kopera, Michal, Kotamarthi, Rao, Kowalski, Karol, Kumar, Jitendra, Kyrpides, Nikos, Leung, Ruby, Li, Xiaolin, Lin, Wuyin, Link, Robert, Liu, Yangang, Loew, Leslie, Luke, Edward, Ma, Hsi -Yen, Mahadevan, Radhakrishnan, Maranas, Costas, Martin, Daniel, Maslowski, Wieslaw, McCue, Lee Ann, McInnes, Lois Curfman, Mills, Richard, Molins Rafa, Sergi, Morozov, Dmitriy, Mostafavi, Sara, Moulton, David J., Mourao, Zenaida, Najm, Habib, Ng, Bernard, Ng, Esmond, Norman, Matt, Oh, Sang -Yun, Oliker, Leonid, Pan, Chongle, Pass, Rebecca, Pau, George S. H., Petridis, Loukas, Prakash, Giri, Price, Stephen, Randall, David, Renslow, Ryan, Riihimaki, Laura, Ringler, Todd, Roberts, Andrew, Rokhsar, Dan, Ruebel, Oliver, Salinger, Andrew, Scheibe, Tim, Schulz, Roland, Sivaraman, Chitra, Smith, Jeremy, Sreepathi, Sarat, Steefel, Carl, Talbot, Jenifer, Tantillo, D. J., Tartakovsky, Alex, Taylor, Mark, Taylor, Ronald, Trebotich, David, Urban, Nathan, Valiev, Marat, Wagner, Allon, Wainwright, Haruko, Wieder, Will, Wiley, Steven, Williams, Dean, Worley, Pat, Xie, Shaocheng, Yelick, Kathy, Yoo, Shinjae, Yosef, Niri, & Zhang, Minghua. Biological and Environmental Research Exascale Requirements Review. An Office of Science review sponsored jointly by Advanced Scientific Computing Research and Biological and Environmental Research, March 28-31, 2016, Rockville, Maryland. United States. doi:10.2172/1375720.
Arkin, Adam, Bader, David C., Coffey, Richard, Antypas, Katie, Bard, Deborah, Dart, Eli, Dosanjh, Sudip, Gerber, Richard, Hack, James, Monga, Inder, Papka, Michael E., Riley, Katherine, Rotman, Lauren, Straatsma, Tjerk, Wells, Jack, Aluru, Srinivas, Andersen, Amity, Aprá, Edoardo, Azad, Ariful, Bates, Susan, Blaby, Ian, Blaby-Haas, Crysten, Bonneau, Rich, Bowen, Ben, Bradford, Mark A., Brodie, Eoin, Brown, James, Buluc, Aydin, Bernholdt, David, Bylaska, Eric, Calvin, Kate, Cannon, Bill, Chen, Xingyuan, Cheng, Xiaolin, Cheung, Margaret, Chowdhary, Kenny, Colella, Phillip, Collins, Bill, Compo, Gil, Crowley, Mike, Debusschere, Bert, D’Imperio, Nicholas, Dror, Ron, Egan, Rob, Evans, Katherine, Friedberg, Iddo, Fyke, Jeremy, Gao, Zheng, Georganas, Evangelos, Giraldo, Frank, Gnanakaran, Gnana, Govind, Niri, Grandy, Stuart, Gustafson, Bill, Hammond, Glenn, Hargrove, William, Heroux, Michael, Hoffman, Forrest, Hofmeyr, Steven, Hunke, Elizabeth, Jackson, Charles, Jacob, Rob, Jacobson, Dan, Jacobson, Matt, Jain, Chirag, Johansen, Hans, Johnson, Jeff, Jones, Andy, Jones, Phil, Kalyanaraman, Ananth, Kang, Senghwa, King, Eric, Koanantakool, Penporn, Kollias, Pavlos, Kopera, Michal, Kotamarthi, Rao, Kowalski, Karol, Kumar, Jitendra, Kyrpides, Nikos, Leung, Ruby, Li, Xiaolin, Lin, Wuyin, Link, Robert, Liu, Yangang, Loew, Leslie, Luke, Edward, Ma, Hsi -Yen, Mahadevan, Radhakrishnan, Maranas, Costas, Martin, Daniel, Maslowski, Wieslaw, McCue, Lee Ann, McInnes, Lois Curfman, Mills, Richard, Molins Rafa, Sergi, Morozov, Dmitriy, Mostafavi, Sara, Moulton, David J., Mourao, Zenaida, Najm, Habib, Ng, Bernard, Ng, Esmond, Norman, Matt, Oh, Sang -Yun, Oliker, Leonid, Pan, Chongle, Pass, Rebecca, Pau, George S. H., Petridis, Loukas, Prakash, Giri, Price, Stephen, Randall, David, Renslow, Ryan, Riihimaki, Laura, Ringler, Todd, Roberts, Andrew, Rokhsar, Dan, Ruebel, Oliver, Salinger, Andrew, Scheibe, Tim, Schulz, Roland, Sivaraman, Chitra, Smith, Jeremy, Sreepathi, Sarat, Steefel, Carl, Talbot, Jenifer, Tantillo, D. J., Tartakovsky, Alex, Taylor, Mark, Taylor, Ronald, Trebotich, David, Urban, Nathan, Valiev, Marat, Wagner, Allon, Wainwright, Haruko, Wieder, Will, Wiley, Steven, Williams, Dean, Worley, Pat, Xie, Shaocheng, Yelick, Kathy, Yoo, Shinjae, Yosef, Niri, and Zhang, Minghua. Thu . "Biological and Environmental Research Exascale Requirements Review. An Office of Science review sponsored jointly by Advanced Scientific Computing Research and Biological and Environmental Research, March 28-31, 2016, Rockville, Maryland". United States. doi:10.2172/1375720. https://www.osti.gov/servlets/purl/1375720.
@article{osti_1375720,
title = {Biological and Environmental Research Exascale Requirements Review. An Office of Science review sponsored jointly by Advanced Scientific Computing Research and Biological and Environmental Research, March 28-31, 2016, Rockville, Maryland},
author = {Arkin, Adam and Bader, David C. and Coffey, Richard and Antypas, Katie and Bard, Deborah and Dart, Eli and Dosanjh, Sudip and Gerber, Richard and Hack, James and Monga, Inder and Papka, Michael E. and Riley, Katherine and Rotman, Lauren and Straatsma, Tjerk and Wells, Jack and Aluru, Srinivas and Andersen, Amity and Aprá, Edoardo and Azad, Ariful and Bates, Susan and Blaby, Ian and Blaby-Haas, Crysten and Bonneau, Rich and Bowen, Ben and Bradford, Mark A. and Brodie, Eoin and Brown, James and Buluc, Aydin and Bernholdt, David and Bylaska, Eric and Calvin, Kate and Cannon, Bill and Chen, Xingyuan and Cheng, Xiaolin and Cheung, Margaret and Chowdhary, Kenny and Colella, Phillip and Collins, Bill and Compo, Gil and Crowley, Mike and Debusschere, Bert and D’Imperio, Nicholas and Dror, Ron and Egan, Rob and Evans, Katherine and Friedberg, Iddo and Fyke, Jeremy and Gao, Zheng and Georganas, Evangelos and Giraldo, Frank and Gnanakaran, Gnana and Govind, Niri and Grandy, Stuart and Gustafson, Bill and Hammond, Glenn and Hargrove, William and Heroux, Michael and Hoffman, Forrest and Hofmeyr, Steven and Hunke, Elizabeth and Jackson, Charles and Jacob, Rob and Jacobson, Dan and Jacobson, Matt and Jain, Chirag and Johansen, Hans and Johnson, Jeff and Jones, Andy and Jones, Phil and Kalyanaraman, Ananth and Kang, Senghwa and King, Eric and Koanantakool, Penporn and Kollias, Pavlos and Kopera, Michal and Kotamarthi, Rao and Kowalski, Karol and Kumar, Jitendra and Kyrpides, Nikos and Leung, Ruby and Li, Xiaolin and Lin, Wuyin and Link, Robert and Liu, Yangang and Loew, Leslie and Luke, Edward and Ma, Hsi -Yen and Mahadevan, Radhakrishnan and Maranas, Costas and Martin, Daniel and Maslowski, Wieslaw and McCue, Lee Ann and McInnes, Lois Curfman and Mills, Richard and Molins Rafa, Sergi and Morozov, Dmitriy and Mostafavi, Sara and Moulton, David J. and Mourao, Zenaida and Najm, Habib and Ng, Bernard and Ng, Esmond and Norman, Matt and Oh, Sang -Yun and Oliker, Leonid and Pan, Chongle and Pass, Rebecca and Pau, George S. H. and Petridis, Loukas and Prakash, Giri and Price, Stephen and Randall, David and Renslow, Ryan and Riihimaki, Laura and Ringler, Todd and Roberts, Andrew and Rokhsar, Dan and Ruebel, Oliver and Salinger, Andrew and Scheibe, Tim and Schulz, Roland and Sivaraman, Chitra and Smith, Jeremy and Sreepathi, Sarat and Steefel, Carl and Talbot, Jenifer and Tantillo, D. J. and Tartakovsky, Alex and Taylor, Mark and Taylor, Ronald and Trebotich, David and Urban, Nathan and Valiev, Marat and Wagner, Allon and Wainwright, Haruko and Wieder, Will and Wiley, Steven and Williams, Dean and Worley, Pat and Xie, Shaocheng and Yelick, Kathy and Yoo, Shinjae and Yosef, Niri and Zhang, Minghua},
abstractNote = {Understanding the fundamentals of genomic systems or the processes governing impactful weather patterns are examples of the types of simulation and modeling performed on the most advanced computing resources in America. High-performance computing and computational science together provide a necessary platform for the mission science conducted by the Biological and Environmental Research (BER) office at the U.S. Department of Energy (DOE). This report reviews BER’s computing needs and their importance for solving some of the toughest problems in BER’s portfolio. BER’s impact on science has been transformative. Mapping the human genome, including the U.S.-supported international Human Genome Project that DOE began in 1987, initiated the era of modern biotechnology and genomics-based systems biology. And since the 1950s, BER has been a core contributor to atmospheric, environmental, and climate science research, beginning with atmospheric circulation studies that were the forerunners of modern Earth system models (ESMs) and by pioneering the implementation of climate codes onto high-performance computers. See http://exascaleage.org/ber/ for more information.},
doi = {10.2172/1375720},
journal = {},
number = ,
volume = ,
place = {United States},
year = {Thu Mar 31 00:00:00 EDT 2016},
month = {Thu Mar 31 00:00:00 EDT 2016}
}

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