The following are selected publications. For all publications, please visit Dr. Nelson’s Google Scholar Page

Development of intestinal organoids as tissue surrogates: cell composition and the epigenetic control of differentiation
L Cao, A Kuratnik, W Xu, JD Gibson, F Kolling, ER Falcone, M Ammar, …
Molecular carcinogenesis 54 (3), 189-202 (2015)

Tempo and mode of gene duplication in mammalian ribosomal protein evolution
AP Dharia, A Obla, MD Gajdosik, A Simon, CE Nelson
PloS one 9 (11), e111721 (2014)

Single cell analysis reveals the stochastic phase of reprogramming to pluripotency is an ordered probabilistic process
KM Chung, FW Kolling IV, MD Gajdosik, S Burger, AC Russell, CE Nelson
PloS one 9 (4), e95304 (2014)

Feature selection and classifier performance on diverse bio-logical datasets
E Hemphill, J Lindsay, C Lee, II Măndoiu, CE Nelson
BMC bioinformatics 15 (13), S4 (2014)

Single-cell transcript profiling of differentiating embryonic stem cells
JD Gibson, CM Jakuba, CE Nelson, MG Carter
Human embryonic and induced pluripotent stem cells: lineage-specific differentiation protocols
Springer (445-463) (2012)

Mechanism of amylin fibrillization enhancement by heparin
S Jha, SM Patil, J Gibson, CE Nelson, NN Alder, AT Alexandrescu
Journal of Biological Chemistry 286 (26), 22894-22904 (2011)

Inferring ethnicity from mitochondrial DNA sequence
C Lee, II Măndoiu, CE Nelson
BMC proceedings 5 (2), S11 (2011)

Intestinal lineage commitment of embryonic stem cells
L Cao, JD Gibson, S Miyamoto, V Sail, R Verma, DW Rosenberg, …
Differentiation 81 (1), 1-10 (2011)

SCLD: a stem cell lineage database for the annotation of cell types and developmental lineages
EE Hemphill, AP Dharia, C Lee, CM Jakuba, JD Gibson, FW Kolling, …
Nucleic acids research 39 (suppl_1), D525-D533 (2011)

The birth of new genes by RNA-and DNA-mediated duplication during mammalian evolution
J Jun, P Ryvkin, E Hemphill, I Mandoiu, C Nelson
Journal of Computational Biology 16 (10), 1429-1444 (2009)

Duplication mechanism and disruptions in flanking regions determine the fate of Mammalian gene duplicates
J Jun, P Ryvkin, E Hemphill, C Nelson
Journal of Computational Biology 16 (9), 1253-1266 (2009)

Single-cell transcript analysis of human embryonic stem cells
JD Gibson, CM Jakuba, N Boucher, KA Holbrook, MG Carter, CE Nelson
Integrative Biology 1 (8-9), 540-55 (2009)