Publications of James S. Clark    :chronological  combined  bibtex listing:

Books

1. J.S. Clark, Models for Ecological Data (under contract), Princeton University Press
2. J.S. Clark, Ecological data models with R (under contract), Princeton University Press
3. Clark, J.S. and A. Gelfand (eds.), Applications of Computational Statistics in the Environmental Sciences: Hierarchical Bayes and MCMC Methods (under contract), Oxford University Press
4. Clark, J.S., B.J. Stocks, H. Cachier, and J.G. Goldammer (eds.), Sediment Records of Biomass Burning and Global Change (1997), Springer Verlag, Berlin, Germany

Papers Published

1. Clark, James S.; Bell, David M.; Hersh, Michelle H.; Kwit, Matthew C.; Moran, Emily; Salk, Carl; Stine, Anne; Valle, Denis; Zhu, Kai, Individual-scale variation, species-scale differences: inference needed to understand diversity, ECOLOGY LETTERS, vol. 14 no. 12 (December, 2011), pp. 1273-1287, ISSN 1461-023X [doi]  [abs]
2. Valle, Denis; Clark, James S.; Zhao, Kaiguang, Enhanced Understanding of Infectious Diseases by Fusing Multiple Datasets: A Case Study on Malaria in the Western Brazilian Amazon Region, PLOS ONE, vol. 6 no. 11 (November, 2011), ISSN 1932-6203 [doi]  [abs]
3. Luo, Yiqi; Ogle, Kiona; Tucker, Colin; Fei, Shenfeng; Gao, Chao; LaDeau, Shannon and Clark, James S.; Schimel, David S., Ecological forecasting and data assimilation in a data-rich era, ECOLOGICAL APPLICATIONS, vol. 21 no. 5 (July, 2011), pp. 1429-1442, ISSN 1051-0761  [abs]
4. Clark, James S.; Agarwal, Pankaj; Bell, David M.; Flikkema, Paul G.; Gelfand, Alan; Nguyen, Xuanlong; Ward, Eric; Yang, Jun, Inferential ecosystem models, from network data to prediction, ECOLOGICAL APPLICATIONS, vol. 21 no. 5 (July, 2011), pp. 1523-1536, ISSN 1051-0761  [abs]
5. Clark, James S.; Bell, David M.; Hersh, Michelle H.; Nichols, Lauren, Climate change vulnerability of forest biodiversity: climate and competition tracking of demographic rates, GLOBAL CHANGE BIOLOGY, vol. 17 no. 5 (May, 2011), pp. 1834-1849, ISSN 1354-1013 [doi]  [abs]
6. J.S. Clark, not complete, please see CV, AAPG Bulletin (Spring, 2011)
7. Moran, Emily V. and Clark, James S., Estimating seed and pollen movement in a monoecious plant: a hierarchical Bayesian approach integrating genetic and ecological data, MOLECULAR ECOLOGY, vol. 20 no. 6 (March, 2011), pp. 1248-1262, ISSN 0962-1083 [doi]  [abs]
8. Luo, Yiqi; Melillo, Jerry; Niu, Shuli; Beier, Claus; Clark, James S.; Classen, Aimee T.; Davidson, Eric; Dukes, Jeffrey S.; Evans, R. Dave; Field, Christopher B.; Czimczik, Claudia I.; Keller, Michael and Kimball, Bruce A.; Kueppers, Lara M.; Norby, Richard J.; Pelini, Shannon L.; Pendall, Elise; Rastetter, Edward; Six, Johan; Smith, Melinda; Tjoelker, Mark G.; Torn, Margaret S., Coordinated approaches to quantify long-term ecosystem dynamics in response to global change, GLOBAL CHANGE BIOLOGY, vol. 17 no. 2 (February, 2011), pp. 843-854, ISSN 1354-1013 [doi]  [abs]
9. Agarwal, Pankaj K.; Molhave, Thomas; Yu, Hai and Clark, James S., Exploiting Temporal Coherence in Forest Dynamics Simulation, in COMPUTATIONAL GEOMETRY (SCG 11) (2011), pp. 77-86, ISBN 978-1-4503-0682-9  [abs]
10. Agarwal, Pankaj K.; Molhave, Thomas; Yu, Hai; Clark, James S., Exploiting Temporal Coherence in Forest Dynamics Simulation, in COMPUTATIONAL GEOMETRY (SCG 11) (2011), pp. 77-86, ISBN 978-1-4503-0682-9  [abs]
11. Wu, W., J.S. Clark, and J. Vose, Assimilating multi-source uncertainties of a parsimonious conceptual hydrological model using hierarchical Bayesian modeling, Journal of Hydrology, vol. 394 (2011), pp. 436-446
12. Zhu, K., C.W. Woodall, and J.S. Clark, Failure to migrate: lack of tree range expansion in response to climate change, Global Change Biology (2011) [pdf]
13. Colchero, F. and J.S. Clark. 2011, Bayesian inference on age-specific survival for censored and truncated data, Journal of Animal Ecology, vol. 80 (2011) [pdf]
14. J.S. Clark, see CV for complete list (2011)
15. Clark, J.S., D.M. Bell, M.H. Hersh, and L. Nichols, Climate change vulnerability of forest biodiversity: climate and resource tracking of demographic rates, Global Change Biology (2010)
16. Moran, E.V. and J.S. Clark, Estimating seed and pollen movement in a monoecious plant: a hierarchical Bayesian approach integrating genetic and ecological data., Molecular Ecology (2010)
17. Clark, J.S., D. Bell, C. Chu, B. Courbaud, M. Dietze, M. Hersh, J. HilleRisLambers, I. Ibanez, S. L. LaDeau, S. M. McMahon, C.J.E. Metcalf, J. Mohan, E. Moran, L. Pangle, S. Pearson, C. Salk, Z. Shen, D. Valle, and P. Wyckoff., High dimensional coexistence based on individual variation: a synthesis of evidence., Ecological Monographs (2010)
18. J.S. Clark, Individuals and the variation needed for high species diversity, Science (2010)
19. Clark, J.S., P. Agarwal , D.M. Bell , P. Flikkema , A. Gelfand , X. Nguyen , E. Ward , and J. Yang, Inferential ecosystem models, from network data to prediction, Ecological Applications (2010)
20. Vieilledent, G., B. Courbaud, G. Kunstler, J.-F. Dhote, and J.S. Clark, Individual variability in tree allometry determines light resource allocation in forest ecosystems: a hierarchical Bayesian approach., Oecolgia (2010)
21. Luo, Y., S. Niu, J. Melillo, C. Beier, J. S. Clark, A. Classen, E. Davidson, J. S. Dukes, D. Evans, C. Field, C. I. Czimczik, M. Keller, L. Kueppers, R. Norby, S. L. Pelini, E. Pendall, E. Rastetter, J. Six, M. Smith, M. Tjoelker, M. Torn, Coordinated approaches to quantify Long-Term Ecosystem dynamics in response to global change, Global Change Biology (2010)
22. Clark, J.S., Beyond neutral science, Trends Ecol Evol no. 24 (2009), pp. 8-15
23. Way, D.A., S. L. LaDeau, H. R. McCarthy, J. S. Clark, R. Oren, A. C. Finzi and R. B. Jackson, Greater seed production in elevated CO2 is not accompanied by reduced seed quality in Pinus taeda L, Ecological Society of America Annual Meeting (2009)
24. Clark, J.S. and M. H. Hersh, Inference when multiple pathogens affect multiple hosts: Bayesian model selection, bayesian analysis (2009)
25. Schick, R.S., P. N. Halpin, A. J. Read, C. K. Slay, S. D. Kraus, B. R. Mate, M. F. Baumgartner, J. J. Roberts, B. D. Best, C. P. Good, S. R. Loarie, and J. S. Clark, Striking the right balance in right whale conservation, Canadian Journal of Fisheries and Aquatic Sciences (2009)
26. J.S. Clark, Beyond neutral science, Trends Ecol Evol (2009)
27. Metcalf, C.J.E., J. S. Clark, and S. M. McMahon, Overcoming data sparseness and parametric constraints in modeling of tree mortality: a new non-parametric Bayesian model, Canadian Journal of Forest Research (2009)
28. Vieilledent, G., B. Courbaud, G. Kunstler, J.-F. Dhôte, and J. S. Clark, Biases in the estimation of size dependent mortality models: advantages of a semi-parametric approach, Canadian Journal of Forest Research (2009)
29. Colchero, F., R. A. Medellin, J. S. Clark, R. Lee, and G. G. Katul, Predicting population survival under future climate change: density dependence, drought and extraction in an insular bighorn sheep (2009)
30. Metcalf, C.J.E., J. S. Clark, and D. A. Clark, Tree growth inference and prediction when the point of measurement changes: modelling around buttresses in tropical forests, Journal of Tropical Ecology (2009)
31. Ibáñez, I., Clark, J.S. and Dietze, Estimating performance of potential migrant species, Global Change Biology (2009)
32. Cressie, N., C. A. Calder, J. S. Clark, J. M. Ver Hoef, and C. K. Wikle, Accounting for uncertainty in ecological analysis: the strengths and limitations of hierarchical statistical modeling, Ecol Appl (2009)
33. Dietze, M., and J.S. Clark, Rethinking gap dynamics: the impact of damaged trees and sprouts, Ecol Monog no. 78 (2008), pp. 331-347
34. Ibáñez, I., Clark, J.S. and Dietze, M., Evaluating the sources of potential migrant species: Implications under climate change, Ecol Appl, vol. 18 (2008), pp. 1664-1678
35. Dietze, M., M. Wolosin, J. S. Clark, Tree allometries: capturing diversity using a Hierarchical Bayes approach. Forest Ecology and Management, vol. 256 (2008), pp. 1939-1948
36. Clark, J.S., D. Bell, M.l Dietze, M. Hersh, I. Ibanez, S. LaDeau, S. McMahon, J. Metcalf, E. Moran, L. Pangle, and M. Wolosin, Models for demography of plant populations, in Handbook of Bayesian Analysis, edited by T. O'Hagan and M. West (2008), Oxford University Press (in press..)
37. Colchero, F., R. A. Medellin, J. S. Clark, R. Lee, and G. G. Katul, Predicting population survival under future climate change: density dependence, drought and extraction in an insular bighorn sheep, Journal of Animal Ecology no. 78 (2008), pp. 666-673
38. Metcalf, C.J.E., J. S. Clark, and D. A. Clark, Tree growth inference and prediction when the point of measurement changes: modelling around buttresses in tropical forests, Journal of Tropical Ecology (2008)
39. Ibáñez, I., Clark, J.S. and Dietze, M., Estimating performance of potential migrant species, Global Change Biology (2008)
40. Schick, R.S., S.R. Loarie, F. Colchero, B.D. Best, A. Boustany, D.A. Conde, P.N. Halpin, L.N. Joppa, C.M. McClellan, and J.S. Clark, Understanding movement data and processes: emerging techniques, Ecol Letters (2008)
41. Clark, J.S., M. Dietze, P. Agarwal, S. Chakraborty, I. Ibanez, S. LaDeau, and M. Wolosin, Resolving the biodiversity debate, Ecol Letters, vol. 10 (2007), pp. 647–662
42. Dietze, M. and J. S. Clark, Changing the gap dynamics paradigm: Vegetative regeneration control on forest response to disturbance, Ecol Monog, vol. 78 (2007), pp. 331-347
43. Clark, J.S., M. Wolosin, M. Dietze, I. Ibanez, S. LaDeau, M. Welsh, and B. Kloeppel, Tree growth inference and prediction from diameter censuses and ring widths. Ecological Applications, Ecol Appl, vol. 17 (2007), pp. 1942-1953
44. Ibáñez, I., J.S. Clark, S. LaDeau, and J. Hille Ris Lambers, Exploiting temporal variability to understand tree recruitment response to climate change, Ecol Monog, vol. 77 (2007), pp. 163-177
45. Flikkema, P.G., P.J. K. Agarwal, J. S. Clark, C. Ellis, A. Gelfand, K. Munagala, and J. Yang, From data reverence to data relevance: Model-mediated wireless sensing of the physical environment, in ICCS 2007, Part I, LNCS 4487, edited by Y. Shi et al. (2007), pp. 988–994
46. Clark, J.S. and A. E. Gelfand, A future for models and data in ecology, Trends Ecol Evol no. 21 (2006), pp. 375-380
47. Mohan, J. E., L. H. Ziska, R. B. Thomas, R. C. Sicher, K. George, J. S. Clark, W. H. Schlesinger, Biomass and toxicity responses of poison ivy (Toxicodendron radicans) to elevated atmospheric CO2, Proceedings of the National Academy of Sciences., vol. 103 no. 24 (2006), pp. 9086

Papers Published

1. Govindarajan, S. M. Dietze, P. Agarwal, and J.S. Clark, A scalable algorithm for dispersing populations, Journal of Intelligent Information Systems (2007) [s10844-006-0030-z]
2. J.S. Clark, Why environmental scientists are becoming Bayesians, Ecology Letters, vol. 8 (2005), pp. 2-14
3. J.S. Clark, Uncertainty in population growth rates calculated from demography: the hierarchical approach, Ecology, vol. 84 (2005), pp. 1370-1381
4. McLachlan, J.S., and J.S. Clark, Reconstructing historical ranges with fossil data at continental scales, Forest Ecology and Management, vol. 197 (2004), pp. 139-147
5. Clark, J.S. and O. Bjornstad, Population time series: Process variability, observation errors, missing values, lags, and hidden states, Ecology, vol. 85 (2004), pp. 3140-3150
6. Clark J.S., S. LaDeau, and I. Ibanez, Fecundity of trees and the colonization-competition hypothesis, Ecological Monographs, vol. 74 (2004), pp. 415-442
7. J.S. Clark, Neutral theory (communication arising): The stability of forest biodiversity, Nature, vol. 427 (2004), pp. 696-697
8. Mohan, J.E., J.S. Clark, and W.H. Schlesinger, Genetic variation in germination, growth, and survivorship of red maple in response to subambient through elevated atmospheric CO2, Global Change Biology, vol. 10 (2004), pp. 233-247
9. Lynch, J.A., J.S. Clark, and B.J. Stocks, Charcoal production, dispersal and deposition from the Fort Providence Experimental Fire: Interpreting fire regimes from charcoal records in boreal forests, Canadian Journal of Forest Research, vol. 34 (2004), pp. 1642-1656
10. J.S. Clark, Reid’s Paradox: Tree migration capacity and rapid climate change, in Conservation and Global Change, edited by T. Lovejoy (2004), Yale University Press
11. Clark, J.S. and J.S. McLachlan, Stability of forest diversity, Nature, vol. 423 (2003), pp. 635-638
12. Higgins, S.I., J. S. Clark, R. Nathan, T. Hovestadt, F. Schurr, J. M. V. Fragoso, M. R. Aguiar, E. Ribbens, and S. Lavorel, Forecasting plant migration rates: managing uncertainty for risk assessment, Journal of Ecology, vol. 91 (2003), pp. 341-347
13. Hille Ris Lambers, J. and J.S. Clark, Effects of dispersal, shrubs, and density-dependent mortality on seed and seedling distributions in temperate forests, Canadian Journal of Forest Research, vol. 33 (2003), pp. 783-795
14. Beckage, B. and J.S. Clark, Seedling survival and growth in Southern Appalachian forests: Does spatial heterogeneity maintain species diversity, Ecology, vol. 84 (2003), pp. 1849-1861
15. Clark, J.S., M. Lewis, J.S. McLachlan, J. Hille Ris Lambers, Estimating population spread: what can we forecast and how well, Ecology, vol. 84 (2003), pp. 1979-1988
16. Calder, K. M. Lavine, P. Mueller, and J.S. Clark, Incorporating multiple sources of stochasticity in population dynamic models, Ecology, vol. 84 (2003), pp. 1395-1402
17. Clark, J.S., Uncertainty in ecological inference and forecasting. (Special Feature), Ecology, vol. 84 (2003), pp. 1370-1381
18. Clark, J.S., Uncertainty in population growth rates calculated from demography: the hierarchical approach, Ecology, vol. 84 (2003), pp. 1349-1360
19. Lynch, J.A., B. Bigelow, J.S. Clark, M. Edwards, and B. Finney, Spatial and temporal variation in boreal fire, Journal of Geophysical Research, vol. 108 (2003), pp. 8152-8169
20. Clark, J. S., J. Mohan, M. Dietze, and I. Ibanez, Coexistence: how to identify trophic tradeoffs, Ecology, vol. 84 (2003), pp. 17-31
21. Hille Ris Lambers, J.S. Clark, and J.B. Beckage, Density Dependent Mortality and the Latitudinal Gradient in Species Diversity, Nature, vol. 417 (2002), pp. 732-735
22. Wyckoff, P.H. and J.S. Clark, Growth and mortality for seven co-occurring tree species in the southern Appalachian Mountains: implications for future forest composition, Journal of Ecology, vol. 90 (2002), pp. 604-615
23. Clark, J.S., E.C. Grimm, J. J. Donovan, S.C. Fritz, D.R. Engstrom, and J.E. Almendinger, Drought cycles and landscape responses to past aridity on prairies of the Northern Great Plains, USA, Ecology, vol. 83 (2002), pp. 595-601
24. Clark, J.S., B. Beckage, J. Hille Ris Lambers, I. Ibanez, S. LaDeau, J. MacLachlan, J. Mohan, and M. Rocca, Dispersal and plant migration, in Encyclopedia of Global Environmental Change, edited by H. Mooney and J. Canadell, vol. 3 (2002), pp. 81-93, Wiley, Chichester, England
25. Clark, J.S., A. M. Gill, and A. P. Kershaw, Spatial variability in fire regimes: its effects on recent and past vegetation, in Flammable Austrailia: the Fire Regimes and Biodiversity of a Continent, edited by R. A. Bradstock, J.E. Williams, and A. M. Gill (2002), pp. 125-144, Cambridge University Press, Cambridge, England
26. Kershaw, A. P., Clark, J.S., A. M. gill, and D. M. D'Costa, A history of fire in Australia, in Flammable Australia: the Fire Regimes and Biodiversity of a Continent, edited by R. Bradstock and A.M. Gill (2002), Cambridge University Press, Cambridge, England. (Pages 3-25.)
27. Lavine, M., B. Beckage, and J.S. Clark, Statistical modeling of seedling mortality, Journal of Agricultural, Biological, and Environmental Statistics, vol. 7 (2002), pp. 21-41
28. J.S. Clark, S.R. Carpenter, M. Barber, S. Collins, A. Dobson, J. Foley, D. Lodge, M. Pascual, R. Pielke, Jr., W. Pizer, C. Pringle, W. V. Reid, K.A. Rose, O. Sala, W.H. Schlesinger, D. Wall, and D. Wear., Ecological forecasts: an emerging imperative, Science, vol. 293 (2001), pp. 657-660
29. Camill, P., J.A Lynch, J.S. Clark, J.B. Adams and B. Jordan, Changes in biomass, aboveground NPP, and peat accumulation following permafrost thaw in the boreal peatlands of Manitoba, Canada, Ecosystems, vol. 4 (2001), pp. 461-478
30. LaDeau, S. and J.S. Clark, Rising CO2 and the fecundity of forest trees, Science, vol. 292 (2001), pp. 95-98
31. Clark, J.S., Lewis, M., and L. Horvath., Invasion by extremes: variation in dispersal and reproduction retards population spread, American Naturalist, vol. 157 (2001), pp. 537-554
32. Clark, J.S., L. Horvath, and M. Lewis, On the estimation of spread for a biological population, Statistics and Probability Letters, vol. 51 (2001), pp. 225-234
33. Schlesinger, W.H., J.S. Clark, J.E. Mohan and C.D. Reid, Global environmental change: effects on biodiversity, in Research Priorities for Conservation Biology, edited by G. Orians and M. Soule (2001), pp. 175-224, Island Press
34. Clark, J.S., E.C. Grimm, J. Lynch, and P.J. Mueller, Effects of Holocene climate change on the C4 grassland/woodland boundary in the Northern Central Plains, Ecology, vol. 82 (2001), pp. 620-636
35. Clark, J.S. and M. Lavine, Bayesian statistics in ecology, in Design and Analysis of Ecological Experiments, edited by S.M. Scheiner and J. Gurevitch (2001), pp. 327–346, Oxford Univ Press, Oxford, England
36. Beckage, B., J.S. Clark, B.D. Clinton, and B.L. Haines, A long-term study of tree seedling recruitment in southern Appalachian forests: the effects of canopy gaps and shrub understories, Canadian Journal of Forest Research, vol. 30 (2000), pp. 1617-1631
37. Camill, P. and J.S. Clark, Complex long-term climate responses of North American boreal forest and savanna, Ecosystems, vol. 3 (2000), pp. 534-544
38. Wyckoff, P.H. and J.S. Clark, Predicting tree mortality from diameter growth: a comparison of maximum likelihood and Bayesian approaches, Canadian Journal of Forest Research, vol. 30 (2000), pp. 156-167
39. Knoepp, J.D., D.C. Coleman, D.A. Crossley, and J.S. Clark, Biological indices of soil quality: an ecosystem case study of their use, Forest Ecology and Management, vol. 138 (2000), pp. 357-368
40. Clark, J.S., B. Beckage, P. Camill, B. Cleveland, J. Hille Ris Lambers, J. Lichter, J. MacLachlan, J. Mohan, and P. Wyckoff, Interpreting recruitment limitation in forests, American Journal of Botany, vol. 86 (1999), pp. 1-16
41. Clark, J.S., M. Silman, R. Kern, E. Macklin, and J. Hille Ris Lambers, Seed dispersal near and far: generalized patterns across temperate and tropical forests, Ecology, vol. 80 (1999), pp. 1475-1494
42. Clark, J. S., C. Fastie, G. Hurtt, S. T. Jackson, C. Johnson, G. King, M. Lewis, J. Lynch, S. Pacala, I.C. Prentice, E. W. Schupp, T. Webb III, and P. Wyckoff, Reid’s Paradox of rapid plant migration, BioScience, vol. 48 (1998), pp. 13-24
43. Clark, J. S., J. Lynch, and B. J. Stocks, Relationships between charcoal particles in air and sediments in west-central Siberia, The Holocene, vol. 8 (1998), pp. 19-30
44. Clark, J. S., E. Macklin, and L. Wood, Stages and spatial scales of recruitment limitation in southern Appalachian forests, Ecological Monographs, vol. 68 (1998), pp. 213-235
45. Camill, P. and J.S. Clark, Climate change disequilibrium of boreal permafrost peatlands caused by local processes, American Naturalist, vol. 151 (1998), pp. 207-222
46. Collatz, G.J., J.A. Berry, and J. S. Clark, Effects of climate and atmospheric CO2 partial pressure on the global distribution of C4 plants: past, present, and future, vol. 114 (1998), pp. 441-454
47. J.S. Clark, Why trees migrate so fast: Confronting theory with dispersal biology and the paleo record, American Naturalist, vol. 152 (1998), pp. 204-224
48. J.S. Clark, Introduction to sediment records of biomass burning and global change, in Sediment Records of Biomass Burning and Global Change, edited by J.S. Clark, H. Cachier , J.G. Goldammer, and B.J. Stocks (1997), pp. 1-9, Springer Verlag, Berlin, Germany
49. J.S. Clark and W. A. Patterson, Background and local charcoal in sediments: scales of fire evidence in the paleorecord., in Sediment Records of Biomass Burning and Global Change, edited by J.S. Clark, H. Cachier , J.G. Goldammer, and B.J. Stocks (1997), pp. 23-48, Springer Verlag, Berlin, Germany
50. J.S. Clark, Facing short-term extrapoloation with long-term evidence: Holocene fire in the north-eastern US forests, Journal of Ecology, vol. 85 (1997), pp. 377-380
51. Pitelka, L. F., J. Ash, S. Berry, R.H.W. Bradshaw, L. Brubaker, J.S. Clark, M.B. Davis, J.M. Dyer, R.H. Gardner, H. Gitay, G. Hope R. Hengeveld, B. Huntley, G.A. King, S. Lavorel, R.N. Mack, G.P. Malanson, M. McGlone, I.R. Noble, I.C. Prentice, M. Rejmane, Plant migration and climate change, American Scientist, vol. 85 (1997), pp. 464-473
52. J.S. Clark and T. C. Hussey, Estimating the mass flux of charcoal from sediment records: the effect of particle size, morphology, and orientation, The Holocene, vol. 6 (1996), pp. 129-144
53. J.S. Clark, Baseline biomass burning emissions of eastern North America, in Biomass Burning and Global Change, edited by J.S. Levine (1996), pp. 750-757, MIT Press, Cambridge, Massachusetts, USA
54. J.S. Clark and P. J. H. Richard, The role of paleofire in boreal and other cool-coniferous forests, in Fire in Ecosystem of Boreal Eurasia, edited by J.G. Goldammer and V.V. Furyaev (1996), pp. 65-89, Kluwer, Dordrecht, The Netherlands
55. Clark, J. S., T. C. Hussey, and P. D. Royall, Presettlement analogs for Quaternary fire regimes in eastern North America, Journal of Paleolimnology, vol. 16 (1996), pp. 79-96  [abs]
56. J.S. Clark and P. D. Royall, Local and regional sediment charcoal evidence for fire regimes in presettlement northeastern North America, Journal of Ecology, vol. 84 (1996), pp. 365-382
57. Clark, J. S., P. D. Royall, and C. Chumbley, The role of fire during climate change in an eastern North American forest at Devil’s Bathtub, New York, Ecology, vol. 77 (1996), pp. 2148-2166
58. Clark, J.S., B.J. Stocks, and P. J.H. Richard, Climate implications of biomass burning since the 19th century in eastern North America, Global Change Biology, vol. 2 (1996), pp. 433-458
59. J.S. Clark, Testing disturbance theory with long-term data: alternative life history solutions to the distribution of events, American Naturalist, vol. 148 (1996), pp. 976-996
60. J.S. Clark, Terrestrial biotic responses to environmental change and feedbacks to climate, in Climate Change 1995: The Science of Climate Change, edited by J.T. Houghton, L. G. Meira Filho, B.A. Callander, N. Harris, A. Kattenberg, and K. Maskell (1996), pp. 445-482, Intergovernmental Panel on Climate Change, Cambridge University Press, Cambridge, England
61. J.S. Clark, Fire in ecosystems of boreal Eurasia: the Bor Forest Island Fire Experiment Fire Research Campaign Asia - North (FIRESCAN), in Biomass Burning and Global Change, edited by J.S. Levine (1996), pp. 848-873, MIT Press, Cambridge, Massachusetts, USA
62. Weiss, K. F., J. G. Goldammer, J. S. Clark, D. A. Livingstone, and M. O. Andreae, Reconstruction of prehistoric fire regimes in East Africa by lake sediment analysis, in Biomass Burning and Global Change, edited by J.S. Levine (1996), MIT Press, Cambridge, Massachusetts, USA
63. Clark, J. S., and Y. Ji., Fecundity and dispersal in plant populations: implications for structure and diversity, The American Naturalist, vol. 146 (1995), pp. 72-111
64. Clark, J. S., and P. D. Royall, Transformation of a northern hardwood forest by aboriginal (Iroquois) fire: charcoal evidence from Crawford Lake, Ontario, Canada, The Holocene, vol. 5 (1995), pp. 1-9
65. J.S. Clark and P. D. Royall, Particle-size evidence for source areas of charcoal accumulation in Late Holocene sediments of eastern North American lakes, Quaternary Research, vol. 43 (1995), pp. 80-89
66. Wright, H. E., and J. S. Clark, Charcoal analysis of varved lake sediments, edited by In S. Hicks, U. Miller , and M. Saarnito, Laminated Sediments and Archaeology, Journal of the European Study Group on Physical, Chemical, Mathematical and Biological Techniques Applied to Archaeology (1995), pp. 125-130, Rixensart, Belgium
67. J.S. Clark, Climate and Indian effects on southern Ontario forests: forum, vol. 5 (1995), pp. 371-379
68. J.S. Clark, Fire in boreal ecosystems of Eurasia: first results of the Bor Forest Island Fire Experiment, Fire Research Campaign Asia-North (FIRESCAN), Journal of World Resources Review (1994), pp. 499-519
69. J.S. Clark and P. D. Royall, Pre-industrial particulate emissions and carbon sequestration from biomass burning in North America, Biogeochemistry, vol. 23 (1994), pp. 1-17
70. J.S. Clark, Sensitivity of forest communities to global climate change, in Biotic Interactions and Global Change, edited by P. Kareiva, J.G. Kingsolver, and R.B. Huey (1993), pp. 315-332, Sinauer, Sunderland, MA
71. J.S. Clark, Functional groups and ecological consistencies: population perspectives on regional forest dynamics, in Scaling Processes between Leaf and Landscape Levels, edited by J. Ehleringer and C. Field (1993), pp. 255-286, New York, NY
72. J.S. Clark and J. Robinson, Paleoecology of Fire, in Fire in the Environment: its Ecological, Climatic, and Atmospheric Chemical Importance, edited by P. Crutzen and J. Goldammer (1993), pp. 193-214, Dahlem Conference, Wiley
73. J.S. Clark, Fire, climate, and forest processes during the last 2000 years, in Ecology and Paleoecology of Elk Lake, edited by W.E. Dean and J.P. Bradbury (1993), pp. 295-308, Geological Society of America
74. J.S. Clark, Shifting mosaic population dynamics, in Patch Dynamics, S. Levin, T.M. Powell, and J.H. Steele (1993), Springer Verlag, New York, New York
75. Binkley, D., P. Becker-Heidman, J.S. Clark, P.J. Crutzen, P. Frost, A.M. Gill, A. Granström, F. Mack, J.–C. Menaut, R.W. Wein, and B. van Wilgren, Impacts of fires on ecosystems, in Fire in the Environment: its Ecological, Climatic, and Atmospheric Chemical importance, edited by P. Crutzen and J. Goldammer (1993), pp. 359-374, Dahlem Conference, Wiley
76. J.S. Clark, Scale relationships in boreal forest, Trends in Ecology and Evolution, vol. 8 (1993), pp. 220
77. J.S. Clark and Reid, C.D., Sensitivity of unmanaged ecosystems to global change, edited by Darmstader, J. and Toman, M. A., Non-linear Responses to Global Change, Resources for the Future (1993), pp. 53-89, Washington, D.C.
78. J.S. Clark, Disturbance, climate change, and forest rehabilitation, in Ecosystem Rehabilitation: Preamble to Sustained Development, edited by M. Wali (1992), pp. 165-186, SPB Academic Publishing, The Hague, Netherlands
79. J.S. Clark, Implications of individual plant growth for landscape patterns of age structure, net primary production, and resource availabilities, edited by D. DeAngelis and L. Gross, Populations, Communities, and Ecosystems: an Individual Perspective (1992), pp. 421-454, Chapman and Hall, New York, NY
80. J.S. Clark, Validating model predictions of climate and vegetation change, in Earth System Modeling, edited by D. Ojima (1992), pp. 423-440, OIES Global Change Institute, Boulder, CO
81. J.S. Clark, Density-independent mortality, density compensation, and gap formation in plant populations, Theoretical Population Biology, vol. 42 (1992), pp. 172-198
82. Morris, L.A., P.B. Bush, and J.S. Clark, Ecological impacts and risks associated with forest management, in Predicting Ecosystem Risk, edited by J. Cairns, B.R. Niederlehner, and D.R. Orvos (1992), pp. 153-214, Princeton Scientific Publishing Co, Princeton, NJ
83. J.S. Clark, Ecosystem sensitivity to climate change and complex responses, in Global Change and Life on Earth, edited by R. Wyman (1991), pp. 65-98, Chapman and Hall, New York, New York
84. J.S. Clark, Forest-tree growth rates and probability of gap origin–a comment, Ecology, vol. 72 (1991), pp. 1166-1169
85. J.S. Clark, Disturbance and tree life history on the shifting mosaic landscape, vol. 72 (1991), pp. 1102-1118
86. J.S. Clark, Disturbance and population structure on the shifting mosaic landscape, Ecology, vol. 72 (1991), pp. 1119-1137
87. J.S. Clark, Fire and climate change during the last 750 years in northwestern Minnesota, Ecological Monographs, vol. 60 (1990), pp. 135-159
88. J.S. Clark, Integration of ecological levels: individual plant growth, population mortality, and ecosystem dynamics, Journal of Ecology, vol. 78 (1990), pp. 275-299
89. J.S. Clark, Effects of 20th century climate change and fire suppression on forest production and decomposition in northwestern Minnesota, Canadian Journal of Forest Research, vol. 20 (1990), pp. 219-232
90. J.S. Clark, Population and evolutionary consequences of being a coastal plant: long-term evidence from the North Atlantic coasts, Aquatic Science Reviews, vol. 2 (1990), pp. 509-533
91. J.S. Clark, Landscape interactions among nitrogen mineralization, species composition, and long-term disturbance, Biogeochemisty, vol. 11 (1990), pp. 1-22
92. J.S. Clark, Water balance and fire occurrence during the last 160 years in northwestern Minnesota, Journal of Ecology, vol. 77 (1989), pp. 989-1004
93. J.S. Clark, Clark, J.S. 1989. Forests are for burning, Natural History, vol. 1 (1989), pp. 50-53
94. J.S. Clark, J. Merkt, and H. Müller, Post Glacial fire, vegetation, and cultural history of the northern Alpine forelands, southwest Germany, Journal of Ecology, vol. 77 (1989), pp. 897-925
95. J.S. Clark, Ecological disturbance as a renewal process: theory and application to fire history, Oikos, vol. 56 (1989), pp. 17-30
96. J.S. Clark, Effects of climate change on fire regime in northwestern Minnesota, Nature, vol. 334 (1988), pp. 233-235
97. J.S. Clark, Stratigraphic charcoal analysis on petrographic thin sections: recent fire history in northwestern Minnesota, Quaternary Research, vol. 30 (1988), pp. 81-91
98. J.S. Clark, Particle motion and the theory of charcoal analysis: source area, transport, deposition, and sampling, Quaternary Research, vol. 30 (1988), pp. 67-80
99. J.S. Clark and Patterson, W.A., Dating of the organic deposits, in Geomorphic Development of Long Island’s South Shore Barriers, edited by S.P. Leatherman (1987), National Park Service Technical Report, Boston, Massachusetts
100. J.S. Clark, Dynamism in the barrier-beach vegetation of Great South Beach, New York, Ecological Monographs, vol. 56 (1986), pp. 97-126
101. J.S. Clark, Late Holocene vegetation and coastal processes at a Long Island tidal marsh, vol. 74 (1986), pp. 561-578
102. J.S. Clark, Coastal forest tree populations in a changing environment, southeastern Long Island, New York, Ecological Monographs, vol. 56 (1986), pp. 259-277
103. J.S. Clark, Overpeck, J., Webb, T., and Patterson, W.A., Pollen stratigraphic correlation and dating of barrier-beach peat sections, Review of Palaeobotany and Palynology, vol. 47 (1986), pp. 145-168
104. J.S. Clark, Vegetation and land-use history of the William Floyd Estate, Fire Island National Seashore, New York (1986) (National Park Service, Office of Scientific Studies Technical Report OSS 86-3, Boston, Massachusetts.)
105. J.S. Clark and W.A. Patterson, The development of a tidal marsh: upland and oceanic influences, Ecological Monographs, vol. 55 (1985), pp. 189-217
106. J.S. Clark, Chronologies for recent sediments in coastal environments, in Proceedings of the 12th Nordic Symposium on Sediments, vol. 12 (1984), pp. 76-81, Skallingen, Denmark
107. J.S. Clark and Patterson, W.A., Pollen, 210Pb, and opaque spherules: an integrated approach to dating and sedimentation in the intertidal environment, Journal of Sedimentary Petrology, vol. 54 (1984), pp. 1249-1263

Papers Accepted

1. Evans, L., J.S. Clark, A. Whipple, and T. Whitham, The relative influences of host plant genotype and yearly abiotic variability in determining herbivore abundance, Oecologia (2010)
2. Way, D.A., S. L. LaDeau, H. R. McCarthy, J. S. Clark, R. Oren, A. C. Finzi and R. B. Jackson, Greater seed production in elevated CO2 is not accompanied by reduced seed quality in Pinus taeda L, Global Change Biology (2009)
3. Gugger, P.F., J.S. Mclachlan, P.S. Manos, and J.S. Clark, Inferring long-distance dispersal and topographic barriers during postglacial colonization from the genetic structure of red maple (Acer rubrum L.) in New England, Journal of Biogeography (2008)

Papers Accepted

1. Hille Ris Lambers, J., J.S. Clark., and M. Lavine, Seed banking in temperate forests: Implications for recruitment limitation, Ecology (2005) (in press.)
2. Wyckoff, P. and J.S. Clark, Comparing predictors of tree growth: the case for exposed canopy area, Canadian Journal of Forest Research (2005) (in press.)
3. Govindarajan, S., M. Dietze, P. Agarwal, and J.S. Clark, A scalable model of forest dynamics, Proceedings of the ACM Symposium on Computational Geometry (2005) (in press.)
4. Brown K.J., Clark J.S., Grimm E.C., Donovan J.J., and Mueller PG, Fire cycles in North American interior grasslands and their relation to prairie droughts, Proceedings of the National Academy of Sciences (2005) (in press.)
5. HilleRisLambers, J. and J.S. Clark, The benefits of seed banking for Acer rubrum: maximizing seedling recruitment, Canadian Journal of Forest Research (2005) (in press.)
6. Gelfand, A., J.S. Clark, and B. Carin, Elements of Bayesian Inference, in Applications of Computational Statistics in the Environmental Sciences: Hierarchical Bayes and MCMC Methods, edited by J.S. Clark and A. Gelfand (2005 under contract), Oxford University Press (in press.)
7. Beckage, B. and J.S. Clark, Do seed and seedling predation contribute to the coexistence of three co-occuring tree species?, Oecologia (2005) (in press.)
8. McLachlan, J.S., J.S. Clark, and P.S. Manos, Molecular indicators of tree migration capacity under rapid climate change, Ecology (2005) (in press.)
9. Lewis, M.A., Neubert, M.G., Caswell, H., Clark, J.S., and Shea, K., A guide to calculating discrete-time invasion rates from data, in Conceptual ecology and invasions biology: Reciprocal approaches to nature, edited by M.W. Cadotte, S.M. McMahon and T.Fukami (2005) (in press.)
10. J.S. Clark and S.L. LaDeau, Synthesizing ecological experiments and observational data with Hierarchical Bayes, in Applications of Computational Statistics in, edited by J.S. Clark and A. Gelfand (2005), Oxford University (in press.)
11. Clark,J.S., G. Ferraz, N. Oguge, H. Hays, and J. DiCostanzo, Hierarchical Bayes for structured and variable populations: from capture-recapture data to life-history prediction, Ecology (2005) (in press.)
12. Clark, J.S. and O. Bjornstad, Population inference from messy data: Errors, missing and hidden states, and lagged responses, Ecology (2003)

Papers Submitted

1. LaDeau, S.L. and J.S. Clark, Elevated CO2 and tree fecundity: the role of tree size, interannual variability, and population heterogeneity (in review)
2. Ibáñez, I., J. S. Clark, M. C. Dietze, K. Feeley, M. Hersh, S. LaDeau, A. McBride, N. E. Welch, and M. S. Wolosin, Predicting biodiversity change: Outside the climate envelope, beyond the species-area curve (in review)
3. Mohan, J.E., J. S. Clark, and W. H. Schlesinger, Long-term CO2 enrichment of an intact forest ecosystem: implications for temperate forest regeneration and succession (in review)
4. Clark, J.S, Data to ecosystem prediction: complexity, variability, and uncertainty with hierarchical Bayes (2003)
5. Beckage, B. and J.S. Clark, Do seed and seedling predation contribute to the coexistence of three co-occuring tree species (2003)
6. Hille Ris Lambers, J., J.S. Clark., and M. Lavine, Seed banking in temperate forests: Implications for recruitment limitation (2003)
7. Clark, J.S., G. Ferraz, and N. Oguge, Population inference from messy data: Structured, variable, and uncertain demographic change (2003)  [abs]

Books Published

1. Clark, J.S., D. Bell, M. Dietze, M. Hersh, I. Ibanez, S. LaDeau, S. M. McMahon, C.J.E. Metcalf, E. Moran, L. Pangle, and M. Wolosin., Models for demography of plant populations, in Handbook of Bayesian Analysis, Oxford University Press. (2010)
2. McMahon, S. M., M. C. Dietze, M. H. Hersh, E. V. Moran, and J. S. Clark, A Predictive Framework to Understand Forest Responses to Global Change, in Year in Ecology and Conservation Biology (2009)
3. Clark, J.S., D. Bell, M. Dietze, M. Hersh, I. Ibanez, S. LaDeau, S. McMahon, J. Metcalf, E. Moran, L. Pangle, and M. Wolosin, Models for demography of plant populations, in Handbook of Bayesian Analysis (2009)
4. Clark. J.S. and A. E. Gelfand (eds), Hierarchical Modelling for the Environmental Sciences, in Oxford University Press, Oxford, England. (2006)