Lough, J.M., Cantin, N.E., Benthuysen, J.A., and Cooper, T.F. (2016) Environmental drivers of growth in massive Porites corals over 16 degrees of latitude along Australia's northwest shelf. Limnology and Oceanography, 61 (2). pp. 684-700.

Cooper, T., Furtado, A., Henry, R.J., and Crayn, D. (2015) Analysis of the chloroplast genome of a coffee relative from northern Australia. Acta Horticulturae, XXIX. pp. 177-182.

Cooper, Timothy F., Ridd, Peter V., Ulstrup, Karin E., Humphrey, Craig, Slivokoff, Matthew, and Fabricius, Katharina E. (2008) Temporal dynamics in coral bioindicators for water quality on coastal coral reefs of the Great Barrier Reef. Marine and Freshwater Research, 59 (8). pp. 703-716.

Cooper, Timothy F., De'Ath, Glenn, Fabricius, Katharina E., and Lough, Janice M. (2008) Declining coral calcification in massive Porites in two nearshore regions of the northern Great Barrier Reef. Global Change Biology, 14 (3). pp. 529-538.

Fabricius, Katharina E., De'Ath, Glenn, Puotinen, Marji Lee, Done, Terry, Cooper, Timothy F., and Burgess, Scott C. (2008) Disturbance gradients on inshore and offshore coral reefs caused by a severe tropical cyclone. Limnology and Oceanography, 53 (2). pp. 690-704.

Humphrey, C., Weber, M., Lott, C., Cooper, T., and Fabricius, K. (2008) Effects of suspended sediments, dissolved inorganic nutrients and salinity on fertilisation and embryo development in the coral Acropora millepora (Ehrenberg, 1834). Coral Reefs, 27 (4). pp. 837-850.

Cooper, Timothy F. (2008) Coral bioindicators of environmental conditions on coastal coral reefs. PhD thesis, James Cook University.