Brotherton, Paul, Haak, Wolfgang, Templeton, Jennifer, Brandt, Guido, Soubrier, Julien, Adler, Christina Jane, Richards, Stephen M., Der Sarkissian, Clio, Ganslmeier, Robert, Friederich, Susanne, Dresely, Veit, van Oven, Mannis, Kenyon, Rosalie, Van der Hoek, Mark B., Korlach, Jonas, Luong, Khai, Ho, Simon Y.W., Quintana-Murci, Lluis, Behar, Doron M., Meller, Harald, Alt, Kurt W. and Cooper, Alan (2013) Neolithic mitochondrial haplogroup H genomes and the genetic origins of Europeans. Nature Communications, 4 (1764). ISSN 2041-1723
Brotherton, Paul, Sanchez, Juan J, Cooper, Alan and Endicott, Phillip (2010) Preferential access to genetic information from endogenous hominin ancient DNA and accurate quantitative SNP-typing via SPEX. Nucleic Acids Research, 38 (2). e7-e7. ISSN 0305-1048
Endicott, Phillip, Sanchez, Juan J, Pichler, Irene, Brotherton, Paul, Brooks, Jerome, Egarter-Vigl, Eduard, Cooper, Alan and Pramstaller, Peter (2009) Genotyping human ancient mtDNA control and coding region polymorphisms with a multiplexed Single-Base-Extension assay: the singular maternal history of the Tyrolean Iceman. BMC Genetics, 10 (1). p. 29. ISSN 1471-2156
Brotherton, Paul, Endicott, Phillip, Beaumont, Mark, Barnett, Ross, Austin, Jeremy, Cooper, Alan and Sanchez, Juan J. (2008) Single primer extension (SPEX) amplification to accurately genotype highly damaged DNA templates. Forensic Science International: Genetics Supplement Series, 1 (1). pp. 19-21. ISSN 18751768
Brotherton, Paul, Endicott, Phillip, Sanchez, Juan J, Beaumont, M., Barnett, R., Austin, J. and Cooper, Alan (2007) Novel high-resolution characterization of ancient DNA reveals C > U-type base modification events as the sole cause of post mortem miscoding lesions. Nucleic Acids Research, 35 (17). pp. 5717-5728. ISSN 0305-1048
Brotherton, Paul (2005) Celtic Place-Names and Archaeology in Derbyshire. Derbyshire Archaeological Journal, 125. pp. 100-137.