Ingalls AE, McDuffee K, Ellis E, Keil R, dos Santos Guaciara, Druffell ERM. In prep. A new method for radiocarbon dating higher plant derived lignin phenols using HPLC purification.  Analytical Chemistry.

Huguet C, Truxal L and Ingalls AE.  In prep. Distribtution of archaea among size fractionated particulate organic matter elucidated from intact and core membrane lipids in a fjord. AEM.

Shevenell A, Ingalls AE, Domack E, Orbital and atmospheric forcing of western Antarctic Peninsula climate during the Holocene: The Tex86 temperature record of Palmer Deep. In review, Nature.

Bridoux M Neilson S., and Ingalls AE, In revision. The occurrence and application of long chain polyamines in sedimentary diatom frustules, a major component of diatom-bound organic matter. GCA.

Huguet C, Martens-Habbena W, Urakawa H, Truxal L, Stahl DA, Ingalls AE.  In revision. Changes in intact membrane lipid content of archaeal cells may indicate metabolic status. Organic Geochemistry.

Huguet C, Martens-Habbena W, Urakawa H, Stahl DA, Ingalls AE. In Press. Optimization of extraction methods for intact and core glycerol dialkyl glycerol tetraethers (GDGTs). 2010. L&O Methods.

Ingalls AE, Whitehead KI, Bridoux, M.  2010.  Tinted windows:  the presence and identification of the UV-absorbing compounds, mycosporine-like amino acids, in the frustules of marine diatoms.  Geochimica Cosmochimica Acta.  doi 10.1016/j.gca.2009.09.012.

Hansman RL, Griffin S, Watson JT, Druffel ERM, Ingalls AE, Pearson A, Aluwihare LI. 2009. The radiocarbon signature of microbial organisms in the mesopelagic ocean. PNAS, 106(16) 6513-6518.

Schouten, S, Hopmans EC, van der Meer J, Mets A, Bard E, Bianchi TS, Diefendorf A, Escala M, Freeman KH, Furukawa Y, Huguet C, Ingalls AE, Ménot-Combes G, Nederbragt AJ, Oba M, Pearson A, Pearson EJ, Rosell-Melé A, Schaeffer P, Shah SR, Shanahan TM, Smith RW, Smittenberg R, Suzuki M, Talbot HM, Uchida M, Van Mooy BAS, Yamamoto M, Zhang Z, Sinningh Damsté J. 2009. An interlaboratory study of TEX86 and BIT analysis using high performance liquid chromatography/mass spectrometry. G-Cubed, 10(3) doi:10.1029/2008GC002221.

de la Torre JR, Walker CB, Ingalls AE, Könneke M, Stahl DA. 2008. Cultivation of a thermophilic ammonia oxidizing archaeon synthesizing crenarchaeol. Environmental Microbiology. doi 10.1111/j1462-2920. 

Walsh E. Ingalls AE, Keil R. 2008. Sources and Transport of Terrestrial Organic Matter in Vancouver Island Fjords and the Vancouver- Washington Margin:  A multiproxy approach using δ13Corg, lignin phenols and the ether lipid BIT Index. Limnology and Oceanography. 53(3) 1054-1063.

Shevenell, A.E., Ingalls, A.E., and E.W. Domack, 2007. Orbital and atmospheric forcing of western Antarctic Peninsula climate in the Holocene: The TEX86 paleotemperature record of Palmer Deep. Changing World-Online Proceedings of the 10th ISAES X, A.K. Cooper and C.R. Raymond et al., eds., USGS Open-File Report, p. 131-4p, vol. 1047. 

Ingalls AE, Liu ZF and Lee C. 2006.  Seasonal and latitudinal trends in source and diagenesis of sinking particles in the Pacific sector of the Southern Ocean: insights from amino acids, pigments and diatom-bound organic matter. Deep-Sea Research I.

Ingalls AE, Shah S, Hansman RL, Aluwihare LI, Santos GM, Druffel ERM, Pearson A. 2006.  Quantifying archaeal community autotrophy in the mesopelagic ocean using natural radiocarbon. 103: 6442-6447. PNAS.

Ingalls AE and Pearson A. The Oceanography Society, Ten years of Compound-Specific Radiocarbon Analysis.  Invited article, Oceanography.  September, 2005, 12-25.

Ingalls AE, Anderson RF, Pearson A, 2004. Compound-specific radiocarbon dating of diatom-bound organic compounds. Marine Chemistry. 92:  91-105.

Ingalls AE, Lee C and Aller RC. 2004.  Organic matter diagenesis in shallow water carbonate sediments. Geochimica et Cosmochimica Acta. 68: 4363-4379

Pearson A., Huang Z., Ingalls A. E., Romanek C., Wiegel J. Freeman K. H., Smittenberg R. H. and Zhang C.L.  2004. Non-marine crenarchaeol in Nevada hot springs, Applied and Environmental Microbiology.  70: 9, 5229-5237.

Ingalls AE, Lee C and Druffel ERM. 2003.  Organic matter preservation in the skeletons of two mound-forming corals.  Geochimica Cosmochimica et Acta.  67: 4, 2827-2841.

Ingalls AE, Lee C, Hedges JI and Wakeham SG. 2003.  The role of biominerals in the sinking flux and preservation of amino acids in the Southern Ocean along 170°W.  Deep-Sea Research II.  50:3-4, 709-734.

Ingalls AE, Aller RC, Lee C and Sun M-Y.  2000. The influence of macrofauna on chlorophyll-a degradation in coastal marine sediments.  Journal of Marine Research 58:4, 631-651.