Critical evaluation of the Illumina MethylationEPIC BeadChip microarray for whole-genome DNA methylation profiling von Pidsley, Ruth, Zotenko, Elena, Peters, Timothy J, Lawrence, Mitchell G, Risbridger, Gail P, Molloy, Peter, Van Djik, Susan, Muhlhausler, Beverly, Stirzaker, Clare, Clark, Susan J

Volltext

Mapping genomic and epigenomic evolution in cancer ecosystems von Ushijima, Toshikazu, Clark, Susan J, Tan, Patrick

Volltext

De novo identification of differentially methylated regions in the human genome von Peters, Timothy J, Buckley, Michael J, Statham, Aaron L, Pidsley, Ruth, Samaras, Katherine, V Lord, Reginald, Clark, Susan J, Molloy, Peter L

Volltext

Calling differentially methylated regions from whole genome bisulphite sequencing with DMRcate von Peters, Timothy J, Buckley, Michael J, Chen, Yunshun, Smyth, Gordon K, Goodnow, Christopher C, Clark, Susan J

Volltext

Multiple links between 5-methylcytosine content of mRNA and translation von Schumann, Ulrike, Zhang, He-Na, Sibbritt, Tennille, Pan, Anyu, Horvath, Attila, Gross, Simon, Clark, Susan J, Yang, Li, Preiss, Thomas

Volltext

Quantitative comparison of DNA methylation assays for biomarker development and clinical applications von Bock, Christoph, Halbritter, Florian, Carmona, Francisco J, Tierling, Sascha, Datlinger, Paul, Assenov, Yassen, Berdasco, María, Bergmann, Anke K, Booher, Keith, Busato, Florence, Campan, Mihaela, Dahl, Christina, Dahmcke, Christina M, Diep, Dinh, Fernández, Agustín F, Gerhauser, Clarissa, Haake, Andrea, Heilmann, Katharina, Holcomb, Thomas, Hussmann, Dianna, Ito, Mitsuteru, Kläver, Ruth, Kreutz, Martin, Kulis, Marta, Lopez, Virginia, Nair, Shalima S, Paul, Dirk S, Plongthongkum, Nongluk, Qu, Wenjia, Queirós, Ana C, Reinicke, Frank, Sauter, Guido, Schlomm, Thorsten, Statham, Aaron, Stirzaker, Clare, Strogantsev, Ruslan, Urdinguio, Rocío G, Walter, Kimberly, Weichenhan, Dieter, Weisenberger, Daniel J, Beck, Stephan, Clark, Susan J, Esteller, Manel, Ferguson-Smith, Anne C, Fraga, Mario F, Guldberg, Per, Hansen, Lise Lotte, Laird, Peter W, Martín-Subero, José I, Nygren, Anders O H, Peist, Ralf, Plass, Christoph, Shames, David S, Siebert, Reiner, Sun, Xueguang, Tost, Jörg, Walter, Jörn, Zhang, Kun

Volltext

Regional Activation of the Cancer Genome by Long-Range Epigenetic Remodeling von Bert, Saul A., Robinson, Mark D., Strbenac, Dario, Statham, Aaron L., Song, Jenny Z., Hulf, Toby, Sutherland, Robert L., Coolen, Marcel W., Stirzaker, Clare, Clark, Susan J.

Volltext

Constitutively bound CTCF sites maintain 3D chromatin architecture and long-range epigenetically regulated domains von Khoury, Amanda, Achinger-Kawecka, Joanna, Bert, Saul A., Smith, Grady C., French, Hugh J., Luu, Phuc-Loi, Peters, Timothy J., Du, Qian, Parry, Aled J., Valdes-Mora, Fatima, Taberlay, Phillippa C., Stirzaker, Clare, Statham, Aaron L., Clark, Susan J.

Volltext

Reconfiguration of nucleosome-depleted regions at distal regulatory elements accompanies DNA methylation of enhancers and insulators in cancer von Taberlay, Phillippa C, Statham, Aaron L, Kelly, Theresa K, Clark, Susan J, Jones, Peter A

Volltext

Macrophage development and activation involve coordinated intron retention in key inflammatory regulators von Green, Immanuel D, Pinello, Natalia, Song, Renhua, Lee, Quintin, Halstead, James M, Kwok, Chau-To, Wong, Alex C H, Nair, Shalima S, Clark, Susan J, Roediger, Ben, Schmitz, Ulf, Larance, Mark, Hayashi, Rippei, Rasko, John E J, Wong, Justin J-L

Volltext

Action at a distance: epigenetic silencing of large chromosomal regions in carcinogenesis von Clark, Susan J.

Volltext

Epigenetic reprogramming at estrogen-receptor binding sites alters 3D chromatin landscape in endocrine-resistant breast cancer von Achinger-Kawecka, Joanna, Valdes-Mora, Fatima, Luu, Phuc-Loi, Giles, Katherine A., Caldon, C. Elizabeth, Qu, Wenjia, Nair, Shalima, Soto, Sebastian, Locke, Warwick J., Yeo-Teh, Nicole S., Gould, Cathryn M., Du, Qian, Smith, Grady C., Ramos, Irene R., Fernandez, Kristine F., Hoon, Dave S., Gee, Julia M. W., Stirzaker, Clare, Clark, Susan J.

Volltext

Replication timing and epigenome remodelling are associated with the nature of chromosomal rearrangements in cancer von Du, Qian, Bert, Saul A., Armstrong, Nicola J., Caldon, C. Elizabeth, Song, Jenny Z., Nair, Shalima S., Gould, Cathryn M., Luu, Phuc-Loi, Peters, Timothy, Khoury, Amanda, Qu, Wenjia, Zotenko, Elena, Stirzaker, Clare, Clark, Susan J.

Volltext

Transient and Permanent Reconfiguration of Chromatin and Transcription Factor Occupancy Drive Reprogramming von Knaupp, Anja S., Buckberry, Sam, Pflueger, Jahnvi, Lim, Sue Mei, Ford, Ethan, Larcombe, Michael R., Rossello, Fernando J., de Mendoza, Alex, Alaei, Sara, Firas, Jaber, Holmes, Melissa L., Nair, Shalima S., Clark, Susan J., Nefzger, Christian M., Lister, Ryan, Polo, Jose M.

Volltext

MicroRNA alterations and associated aberrant DNA methylation patterns across multiple sample types in oral squamous cell carcinoma von Wiklund, Erik D, Gao, Shan, Hulf, Toby, Sibbritt, Tennille, Nair, Shalima, Costea, Daniela Elena, Villadsen, Sune B, Bakholdt, Vivi, Bramsen, Jesper B, Sørensen, Jens A, Krogdahl, Annelise, Clark, Susan J, Kjems, Jørgen

Volltext

Enduring epigenetic landmarks define the cancer microenvironment von Pidsley, Ruth, Lawrence, Mitchell G, Zotenko, Elena, Niranjan, Birunthi, Statham, Aaron, Song, Jenny, Chabanon, Roman M, Qu, Wenjia, Wang, Hong, Richards, Michelle, Nair, Shalima S, Armstrong, Nicola J, Nim, Hieu T, Papargiris, Melissa, Balanathan, Preetika, French, Hugh, Peters, Timothy, Norden, Sam, Ryan, Andrew, Pedersen, John, Kench, James, Daly, Roger J, Horvath, Lisa G, Stricker, Phillip, Frydenberg, Mark, Taylor, Renea A, Stirzaker, Clare, Risbridger, Gail P, Clark, Susan J

Volltext

Coordinated epigenetic repression of the miR‐200 family and miR‐205 in invasive bladder cancer von Wiklund, Erik D., Bramsen, Jesper B., Hulf, Toby, Dyrskjøt, Lars, Ramanathan, Ramshanker, Hansen, Thomas B., Villadsen, Sune B., Gao, Shan, Ostenfeld, Marie S., Borre, Michael, Peter, Marcus E., Ørntoft, Torben F., Kjems, Jørgen, Clark, Susan J.

Volltext

Machine learning enables pan-cancer identification of mutational hotspots at persistent CTCF binding sites von Chen, Wenhan, Zeng, Yi C, Achinger-Kawecka, Joanna, Campbell, Elyssa, Jones, Alicia K, Stewart, Alastair G, Khoury, Amanda, Clark, Susan J

Volltext

Smoke-Induced Changes to the Epigenome Provide Fertile Ground for Oncogenic Mutation von Clark, Susan J., Molloy, Peter L.

Volltext

Bisulfite sequencing of chromatin immunoprecipitated DNA (BisChIP-seq) directly informs methylation status of histone-modified DNA von Statham, Aaron L, Robinson, Mark D, Song, Jenny Z, Coolen, Marcel W, Stirzaker, Clare, Clark, Susan J

Volltext