Gould AL, Zhang V, Lamberti L, Jones EW, Obadia B, Gavryushkin A, Carlson JM, Beerenwinkel N, Ludington WB. (2017) High-dimensional microbiome interactions shape host fitness. bioRxiv.

Chandler JA, Innocent LV, Yang JL, Eisen MB, Ludington WB. (2017) Microbiome-by-ethanol interactions impact Drosophila melanogaster fitness and physiology. bioRxiv.

Obadia B, Güvener ZT, Zhang V, Ceja-Navarro JA, Brodie EL, Ja WJ, Ludington WB. (2017) Probabilistic Invasion Underlies Natural Gut Microbiome Stability. Current Biology.

Ludington WB, Seher TD, Applegate O, Li X, Kliegman JI, Langelier C, Atwill ER, Harter T, DeRisi JL. (2017) Assessing biosynthetic potential of agricultural groundwater through metagenomic sequencing: A diverse anammox community dominates nitrate-rich groundwater. PLoS One.

Elya C, Zhang V, Ludington WB, Eisen MB. (2016) Stable host gene expression in the gut of adult Drosophila melanogaster with different bacterial mono-associations. PLoS One.

Koch MA, Reiner GL, Lugo KA, Kreuk LS, Stanbery AG, Ansaldo E, Seher TD, Ludington WB, Barton GM. (2016) Maternal IgG and IgA Antibodies Dampen Mucosal T Helper Cell Responses in Early Life. Cell.

Ludington WB, Ishikawa H, Serebrenik YV, Ritter A, Hernandez-Lopez RA, Gunzenhauser J, Kannegaard E, Marshall WF. (2015). A systematic comparison of mathematical models for inherent measurement of ciliary length: how a cell can measure length and volume. Biophsical Journal.

Ludington WB, Wemmer KA, Lechtreck KF, Witman GB, Marshall WF. (2013) Avalanche-like behavior in ciliary import. PNAS. 110:3925-30.

Ludington WB, Shi LZ, Zhu Q, Berns MW, Marshall WF. (2012) Organelle size equalization by a constitutive process. Current Biology. 22:22.

Ludington WB and Marshall WF. (2009) Automated analysis of intracellular motion using kymographs in 1, 2, and 3 dimensions. SPIE Proceedings Vol. 7184 in Three-Dimensional and Multidimensional Microscopy: Image Acquisition and Processing XVI, Jose-Angel Conchello; Carol J. Cogswell; Tony Wilson, Editors.

Engel BD*, Ludington WB* and Marshall WF. (2009) Intraflagellar transport particle size scales inversely with flagellar length: revisiting the balance point model. Journal of Cell Biology. 187:1. *equal contributing authors

Nyholm SV, Passegue E, Ludington WB, Voskoboynik A, Mitchel K, Weissman IL, and De Tomaso AW. (2006) Fester, a Candidate Allorecognition Receptor from a Primitive Chordate. Immunity. 25:163.

De Tomaso AW, Nyholm SV, Ishizuka KI, Palmeri KP, Ludington WB, Mitchel K and Weissman IL. (2005) Isolation and characterization of a protochordate histocompatibility locus. Nature. 438:454.

Ludington WB, Callicott KA, DeTomaso AW. (2004) Genetic variation in Mastocarpus papillatus (Rhodophyta) in central California using AFLPs.  Plant Species Biology. 19:107.