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Müllerová J., Pergl J. & Pyšek P. 2013: Remote sensing as a tool for monitoring plant invasions: testing the effects of data resolution and image classification approach on the detection of a model plant species Heracleum mantegazzianum (giant hogweed). International Journal of Applied Earth Observation and Geoinformation 25, 55 - 65. doi:10.1016/j.jag.2013.03.004
Müllerová J., Szabó P., Kopecký M. & Macek M. 2013: LONGWOOD: integrating woodland history and ecology in a geodatabase through an interdisciplinary approach. Proceedings of SPIE - The International Society for Optical Engineering 8795, 1 - 8. doi:10.1117/12.2027650
Vítková M., Vítek O. & Müllerová J. 2012: Antropogenní změny vegetace nad horní hranicí lesa v Krkonošském národním parku s důrazem na vliv turistiky. Opera Corcontica 2012, 5 - 30.
Müllerová J., Vítková M. & Vítek O. 2011: The impacts of road and walking trails upon adjacent vegetation: effects of road building materials on species composition in a nutrient poor environment. Science of the Total Environment 409, 3839 - 3849. doi:10.1016/j.scitotenv.2011.06.056
Pergl J., Müllerová J., Perglová I., Herben T. & Pyšek P. 2011: The role of long-distance seed dispersal in the local population dynamics of an invasive plant species. Diversity and Distributions 17, 725 - 738. doi:10.1111/j.1472-4642.2011.00771.x
Pyšek P., Pergl J., Jahodová Š., Moravcová L., Müllerová J., Perglová I. & Wild J. 2010: The hogweed story: invasion of Europe by large Heracleum species. In: Settele J., Penev L., Georgiev T., Grabaum R., Grobelnik V., Hammen V., Klotz S., Kotarac M. & Kühn I. (eds), Atlas of biodiversity risk, p. 150-151, Pensoft, Sofia & Moscow., 150 - 151.
Müllerová J., Pyšek P., Pergl J. & Jarošík V. 2008: Dlouhodobá dynamika šíření bolševníku velkolepého (Heracleum mantegazzianum) v krajině: využití leteckých snímků. Zprávy České Botanické Společnosti 43, 91 - 102.
Pyšek P., Jarošík V., Müllerová J., Pergl J. & Wild J. 2008: Comparing the rate of invasion by Heracleum mantegazzianum at continental, regional, and local scales. Diversity and Distributions 14, 355 - 363.
Nehrbass N., Winkler E., Müllerová J., Pergl J., Pyšek P. & Perglová I. 2007: A simulation model of plant invasion: long-distance dispersal determines the pattern of spread. Biological Invasions 9, 383 - 395.
Pyšek P., Müllerová J. & Jarošík V. 2007: Hustorical dynamics of Heracleum mantegazzianum invasion on regional and local scales. In: Pyšek P., Cock M.J.W., Nentwig W. & Ravn H.P. (eds.), Ecology and Management of Giant Hogweed (Heracleum mantegazzianum), CAB International, Wallingford, UK (vii+324 pp), 42 - 54.
Müllerová J., Pyšek P., Jarošík V. & Pergl J. 2005: Aerial photographs as a tool for assessing the regional dynamics of the invasive plant species Heracleum mantegazzianum. Journal of Applied Ecology 42, 1042 - 1053.
Nielsen C., Ravn H. P., Cock M., Nentwig W. (eds.), Booy O., Eckstein L., Hansen S. E., Hattendorf J., Hüls J., Jahodová Š., Krinke L., Moravcová L., Müllerová J., Otte A., Pergl J., Perglová I., Priekule I., Pyšek P., Thiele J., Treikale O., Trybush S., Vanaga I. & Wittenberg R. 2005: The giant hogweed best practice manual. Guidelines for the management and control of an invasive alien weed in Europe. Forest and Landscape Denmark, Hoersholm, Denmark, 1 - 44.
Müllerová, J. 2004: Use of digital aerial photography for sub-alpine vegetation mapping: a case study from the Krkonoše Mts., Czech Republic. Plant Ecology 175(2), 259 - 272.
2001: Pyšek P., Prach K., Joyce C. B., Mucina L., Rapson G. L. & J. Müllerová (2001) (eds.): The role of vegetation succession in ecosystem restoration. – Appl. Veget. Sci. 4: 1–114. [2]..
2001: 147. Pyšek P., Prach K., Müllerová J. & Joyce C.B. (2001): The role of vegetation succession in ecosystem restoration: Introduction. – Appl. Veget. Sci. 4: 1–4. [1]..
Müllerová J., Bartaloš T., Brůna J., Dvořák P. & Vítková M.: Metodika mapování invazních druhů pomocí dálkového průzkumu..