Seth CheethamDr Cheetham has a long-term interest with understanding the functions of the noncoding genome. He conducted his Honours project with Professor John Mattick at the Institute for Molecular Bioscience, UQ. His research focussed on differentiating human protein-coding and noncoding RNAs. For his PhD, he joined the group of Professor Andrea Brand at the University of Cambridge, on a Herchel Smith Studentship. There he studied the functions of long noncoding RNAs (lncRNAs) in neural development and the mechanisms through which they act. Dr Cheetham expanded the application of DamID including developing a novel method to map lncRNA-chromatin associations in vivo and developing Targeted DamID for the mammalian cells.

Following his PhD Dr Cheetham has joined Professor Geoff Faulkner’s group to continue to investigate the roles of “junk” DNA in human biology. In 2019 Dr Cheetham was awarded an NHMRC Peter Doherty Early Career Fellowship commencing in 2019.


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Ewing, Adam D; Smits, Nathan; Sanchez-Luque, Francisco J; Faivre, Jamila; Brennan, Paul M; Richardson, Sandra R; Cheetham, Seth W; Faulkner, Geoffrey J

Nanopore Sequencing Enables Comprehensive Transposable Element Epigenomic Profiling (Journal Article)

In: Molecular Cell, 2020, ISSN: 1097-2765.

(Abstract | Links | BibTeX | Altmetric)

Cheetham, Seth W; Faulkner, Geoffrey J; Dinger, Marcel E

Overcoming challenges and dogmas to understand the functions of pseudogenes (Journal Article)

In: Nature Reviews Genetics, 21 (3), pp. 191–201, 2020, ISSN: 1471-0064, (Number: 3 Publisher: Nature Publishing Group).

(Abstract | Links | BibTeX | Altmetric)


Sanchez-Luque, Francisco J; Kempen, Marie-Jeanne H C; Gerdes, Patricia; Vargas-Landin, Dulce B; Richardson, Sandra R; Troskie, Robin-Lee; Jesuadian, Samuel J; Cheetham, Seth W; Carreira, Patricia E; Salvador-Palomeque, Carmen; García-Cañadas, Marta; Muñoz-Lopez, Martin; Sanchez, Laura; Lundberg, Mischa; Macia, Angela; Heras, Sara R; Brennan, Paul M; Lister, Ryan; Garcia-Perez, Jose L; Ewing, Adam D; Faulkner, Geoffrey J

LINE-1 Evasion of Epigenetic Repression in Humans (Journal Article)

In: Molecular Cell, 0 (0), 2019, ISSN: 1097-2765.

(Abstract | Links | BibTeX | Altmetric)

Aughey, Gabriel N; Cheetham, Seth W; Southall, Tony D

DamID as a versatile tool for understanding gene regulation (Journal Article)

In: Development, 146 (6), 2019, ISSN: 1477-9129.

(Abstract | Links | BibTeX | Altmetric)


Cheetham, Seth W; Brand, Andrea H

RNA-DamID reveals cell-type-specific binding of roX RNAs at chromatin-entry sites (Journal Article)

In: Nature Structural & Molecular Biology, 25 (1), pp. 109–114, 2018, ISSN: 1545-9985.

(Abstract | Links | BibTeX | Altmetric)

Cheetham, Seth W; Gruhn, Wolfram H; van den Ameele, Jelle; Krautz, Robert; Southall, Tony D; Kobayashi, Toshihiro; Surani, Azim M; Brand, Andrea H

Targeted DamID reveals differential binding of mammalian pluripotency factors (Journal Article)

In: Development, 145 (20), 2018, ISSN: 1477-9129.

(Abstract | Links | BibTeX | Altmetric)


Gloss, Brian S; Signal, Bethany; Cheetham, Seth W; Gruhl, Franziska; Kaczorowski, Dominik C; Perkins, Andrew C; Dinger, Marcel E

High resolution temporal transcriptomics of mouse embryoid body development reveals complex expression dynamics of coding and noncoding loci (Journal Article)

In: Scientific Reports, 7 (1), pp. 6731, 2017, ISSN: 2045-2322.

(Abstract | Links | BibTeX | Altmetric)


Marshall, Owen J; Southall, Tony D; Cheetham, Seth W; Brand, Andrea H

Cell-type-specific profiling of protein-DNA interactions without cell isolation using targeted DamID with next-generation sequencing (Journal Article)

In: Nature Protocols, 11 (9), pp. 1586–1598, 2016, ISSN: 1750-2799.

(Abstract | Links | BibTeX | Altmetric)

Bell, Charles C; Amaral, Paulo P; Kalsbeek, Anton; Magor, Graham W; Gillinder, Kevin R; Tangermann, Pierre; di Lisio, Lorena; Cheetham, Seth W; Gruhl, Franziska; Frith, Jessica; Tallack, Michael R; Ru, Ke-Lin; Crawford, Joanna; Mattick, John S; Dinger, Marcel E; Perkins, Andrew C

The Evx1/Evx1as gene locus regulates anterior-posterior patterning during gastrulation (Journal Article)

In: Scientific Reports, 6 , pp. 26657, 2016, ISSN: 2045-2322.

(Abstract | Links | BibTeX | Altmetric)


Otsuki, Leo; Cheetham, Seth W; Brand, Andrea H

Freedom of expression: cell-type-specific gene profiling (Journal Article)

In: Wiley Interdisciplinary Reviews. Developmental Biology, 3 (6), pp. 429–443, 2014, ISSN: 1759-7692.

(Abstract | Links | BibTeX | Altmetric)


Cheetham, Seth W; Brand, Andrea H

Insulin Finds Its Niche (Journal Article)

In: Science, 340 (6134), pp. 817–818, 2013, ISSN: 0036-8075, 1095-9203.

(Abstract | Links | BibTeX | Altmetric)

Cheetham, S W; Gruhl, F; Mattick, J S; Dinger, M E

Long noncoding RNAs and the genetics of cancer (Journal Article)

In: British Journal of Cancer, 108 (12), pp. 2419–2425, 2013, ISSN: 1532-1827.

(Abstract | Links | BibTeX | Altmetric)


Gascoigne, Dennis K; Cheetham, Seth W; Cattenoz, Pierre B; Clark, Michael B; Amaral, Paulo P; Taft, Ryan J; Wilhelm, Dagmar; Dinger, Marcel E; Mattick, John S

Pinstripe: a suite of programs for integrating transcriptomic and proteomic datasets identifies novel proteins and improves differentiation of protein-coding and non-coding genes (Journal Article)

In: Bioinformatics (Oxford, England), 28 (23), pp. 3042–3050, 2012, ISSN: 1367-4811.

(Abstract | Links | BibTeX | Altmetric)

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