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Nagarajan, S, Rao, S.V, Chernukhin, I, Sutton, J, Cheeseman, D, Dunn, S, Papachristou, E.K, Gonzalez Prada, J-E, Couturier, D-L, Kumar, S, Kishore, K, Chilamakuri, CSR, Glont, S-E, Goode, E.A, Brodie, C, Guppy, N, Natrajan, R, Bruna, A, Caldas, C, Russell, A.I, Siersbæk, R, Yusa, K and Carroll, J. S. ARID1A dictates HDAC1/BRD4 activity, intrinsic proliferative capacity and breast cancer treatment response. Nature Genetics, 2020, 52: 187-197

Piggin, C.L, Roden, D.L, Law, A.M.K, Molloy, M.P, Krisp, C, Swarbrick, A, Naylor, M.J, Kalyuga, M, Kaplan, W, Oakes, S.R, Gallego-Ortega, D, Clark, S.J, Carroll, J.S,  Bartonicek, N and Ormandy, C.J. ELF5 Modulates the Estrogen Receptor Cistrome in Breast Cancer,  PLoS Genet, 2020, 16 (1), e1008531

Pettigrew, T.R,  Porter, R.J,  Walsh, S.J, Housden, M.P, Lam N.Y.S, Carroll, J.S,  Parker  J.S, Spring, D.R and Paterson, I. Total Synthesis and Biological Evaluation of Simplified Aplyronine Analogues as Synthetically Tractable Anticancer Agents, Chem Commun, 2020, 56 (10), 1529-1532

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Shu, S, Wu, H.J, Ge, J.Y, Zeid, R, Harris, I.S, Jovanović, B, Murphy, K, Wang, B, Qiu, X, Endress, J.E, Reyes, J, Lim, K, Font-Tello, A, Syamala, S, Xiao, T, Reddy Chilamakuri, C.S, Papachristou, E.K, D'Santos, C, Anand, J, Hinohara, K, Li, W, McDonald, T.O, Luoma, A, Modiste, R.J, Nguyen, Q.D, Michel, B, Cejas, P, Kadoch, C, Jaffe, J.D, Wucherpfennig, K.W, Qi, J, Liu, X.S, Long, H, Brown, M, Carroll, J.S, Brugge, J.S, Bradner, J, Michor, F and Polyak, K. Mol Cell. 2020:S1097-2765

Walsh, S.J, Iegre, J, Seki, H, Bargh, J.D, Sore, H.F, Parker, J.S, Carroll J.S and Spring, D.R. General dual functionalisation of biomacromolecules via a cysteine bridging strategy. Org Biomol Chem. 2020 May 20. doi: 10.1039/d0ob00907e

Hruschka, N, Kalisz, M, Subijana, M, Graña-Castro, O, Del Cano-Ochoa, F, Brunet, L.P, Chernukhin, I, Sagrera, A, De Reynies, A, Kloesch, B, Chin, S-F, Burgués, O, Andreu, D, Bermejo, B, Cejalvo, J.M, Sutton, J, Caldas, C, Ramón-Maiques, S, Carroll, J.S, Prat, A, Real, F.X and Martinelli P.The GATA3 X308_Splice breast cancer mutation is a hormone context-dependent oncogenic driver. Oncogene. 2020. 39(32):5455-5467

Baker, L.A, Holliday, H, Roden, D, Krisp, C, Wu, S.Z, Junankar, S, Serandour, A.A, Mohammed, H, Nair, R, Sankaranarayanan, G, Law, A.M.K, McFarland, A, Simpson, P.T, Lakhani, S, Dodson, E, Selinger, C, Anderson, L, Samimi, G, Hacker, N.F, Lim, E, Ormandy, C.J, Naylor, M.J, Simpson, K, Nikolic, I, O'Toole, S, Kaplan, W, Cowley, M.J, Carroll, J.S, Molloy, M and Swarbrick, A. Proteogenomic analysis of Inhibitor of Differentiation 4 (ID4) in basal-like breast cancer. Breast Cancer Res. 2020 Jun 11;22(1):63. doi: 10.1186/s13058-020-01306-6

Siersbæk, R, Scabia, V, Nagarajan, S, Chernukhin, I, Papachristou, E.K, Broome, R, Johnston, S.J, Joosten, S.E.P, Green, A.R, Kumar, S, Jones, J, Omarjee, S, Ruben, A, Glont, S, Aitken, S.J, Kishore, K, Cheeseman, D, Rakha, E.A, D’Santos, C, Zwart, W, Russell, A, Brisken, C and Carroll J.S. IL6/STAT3 signaling hijacks ER enhancers to drive breast cancer metastasis. Cancer Cell, 2020, 38: 412-423

Wang, S, Somisetty ,V.S, Bai, B, Chernukhin, I, Niskanen, H, Kaikkonen, M.U, Bellet, M, Carroll, J.S and Hurtado, A. The proapoptotic gene interferon regulatory factor-1 mediates the antiproliferative outcome of paired box 2 gene and tamoxifen. Oncogene. 2020. doi: 10.1038/s41388-020-01435-4.

Charoenpattarapreeda, J, Walsh, S.J, Carroll, J.S and Spring, D.R. Expeditious Total Synthesis of Hemiasterlin through a Convergent Multicomponent Strategy and Its Use in Targeted Cancer Therapeutics. Angew Chem Int Ed Engl. 2020 Sep 7. doi: 10.1002/anie.202010090

Omarjee, S and Carroll, J.S. Targeting LSD1 and FOXA1 in prostate cancer. Nat Genet. 2020 Oct;52(10):1002-1003

Ali, F.R, Marcos, D, Chernukhin, I, Woods, L.M, Parkinson, L.M, Wylie, L.A, Papkovskaia, T.D, Davies, J.D, Carroll, J.S and Philpott, A. Dephosphorylation of the proneural transcription factor ASCL1 re-engages a latent post-mitotic differentiation programme in neuroblastoma. Mol Cancer Res. 2020 Oct 12:molcanres.0693.2020. doi: 10.1158/1541-7786

Giannoudis, A, Malki, M.I, Rudraraju, B, Mohhamed, H, Menon, S, Liloglou, T, Ali, S, Carroll, J.S and Palmieri, C. Activating transcription factor-2 (ATF2) is a key determinant of resistance to endocrine treatment in an in vitro model of breast cancer. Breast Cancer Res. 2020 Nov 16;22(1):126. doi: 10.1186/s13058-020-01359-7

Glont ,S. E, Chernukhin, I and Carroll J.S. Comprehensive Genomic Analysis Reveals that the Pioneering Function of FOXA1 Is Independent of Hormonal Signaling. Cell Rep. 2019, 26:2558-2565

Goodman, M.L, Trinca, G.M, Walter, K.R, Papachristou, E.K, D'Santos, C.S, Li, T, Liu, Q, Lai, Z, Chalise, P, Madan, R, Fan, F, Markiewicz, M.A, Jin, V.X, Carroll, J.S and Hagan, C.R. Progesterone Receptor Attenuates STAT1-Mediated IFN Signaling in Breast Cancer. J Immunol. 2019. pii: ji1801152

Glont, S.E, Papachristou, E.K, Sawle, A, Holmes, K.A, Carroll, J.S and Siersbaek R. Identification of ChIP-seq and RIME grade antibodies for Estrogen Receptor alpha. PLoS One. 2019, 14:e0215340

Peluffo, G, Subedee, A, Harper, N.W, Kingston, N, Jovanović, B, Flores, F, Stevens, L.E, Beca, F, Trinh, A, Chilamakuri, C.S.R, Papachristou, E.K, Murphy, K, Su, Y, Marusyk, A, D'Santos, C.S, Rueda, O.M, Beck, A.H, Caldas, C, Carroll, J.S and Polyak, K. EN1 Is a Transcriptional Dependency in Triple-Negative Breast Cancer Associated with Brain Metastasis.

Redmond. A.M,  Omarjee, S  Chernukhin, I,  Le Romancer, M and  Carroll J.S. Analysis of HER2 Genomic Binding in Breast Cancer Cells Identifies a Global Role in Direct Gene Regulation. PLoS One, 2019, 14 (11), e0225180

Papachristou EK, Kishore K, Holding AN, Harvey K, Roumeliotis TI Chilamakuri CSR, Omarjee S, Chia KM, Swarbrick A, Lim E, Markowetz F, Eldridge M, Siersbaek R, D’Santos CS and Carroll JS. A quantitative mass spectrometry-based approach to monitor the dynamics of endogenous chromatin-associated protein complexes. Nature Communications 2018, 9, 2311.

Browne, A.L, Charmsaz, S, Varešlija, D, Fagan, A, Cosgrove, N, Cocchiglia, S, Purcell, S, Ward, E, Bane, F, Hudson, L, Hill, A.D, Carroll, J.S, Redmond, A.M and Young, L.S. Network analysis of SRC-1 reveals a novel transcription factor hub which regulates endocrine resistant breast cancer. Oncogene. 2018, 37: 2008-21

Jurmeister, S, Ramos-Montoya, A, Sandi, C, Pértega-Gomes, N, Wadhwa, K, Lamb, A.D, Dunning, M.J, Attig, J, Carroll, J.S, Fryer, L.G, Felisbino, S.L and Neal, D.E. Identification of potential therapeutic targets in prostate cancer through a cross-species approach. EMBO Mol Med. 2018, doi: 10.15252/emmm.201708274

Michaloglou, C, Crafter, C, Siersbæk, R, Delpuech, O, Curwen, J.O, Carnevalli, L.S, Staniszewska, A.D, Polanska, U.M, Cheraghchi-Bashi, A, Lawson, M, Chernukhin, I, McEwen, R, Carroll, J.S and Cosulich, S.C. Combined inhibition of mTOR and CDK4/6 is required for optimal blockade of E2F function and long term growth inhibition in estrogen receptor positive breast cancer. Mol Cancer Ther. 2018, 17: 908-20

Serandour, A.A, Mohammed, H, Miremadi, A, Mulder, K.W and Carroll J.S. TRPS1 regulates estrogen-receptor binding and histone acetylation at enhancers. Oncogene, 2018, doi: 10.1038/s41388-018-0312-2

Rouhimoghadam, M, Safarian, S, Carroll, J.S, Sheibani, N, Bidkhori, G Tamoxifen-Induced Apoptosis of MCF-7 Cells via GPR30/PI3K/MAPKs Interactions: Verification by ODE Modeling and RNA Sequencing. Front Physiol. 2018 Jul 11;9:907

Centenera, M.M, Hickey, T.E, Jindal ,S, Ryan, N.K, Ravindranathan, P, Mohammed, H, Robinson, J.L, Schiewer, M.J, Ma, S, Kapur, P, Sutherland, P.D, Hoffmann, C.E, Roehrborn, C.G, Gomella, L.G, Carroll, J.S, Birrell, S.N, Knudsen, K.E, Raj, G.V, Butler, L.M, Tilley, W.D. A patient-derived explant (PDE) model of hormone-dependent cancer. Mol Oncol. 2018 Sep;12(9):1608-1622

Siersbæk, R, Kumar, S, Carroll, J.S. Signaling pathways and steroid receptors modulating estrogen receptor α function in breast cancer. Genes Dev. 2018 Sep 1;32(17-18):1141-1154

Warren, A.Y, Massie, C.E, Watt, K, Luko, K, Orafidiya, F, Selth, L.A, Mohammed, H, Chohan, B.S, Menon, S, Baridi, A, Zhao, W, Escriu, C, Pungsrinont, T, D'Santos, C, Yang, X, Taylor, C, Qureshi, A, Zecchini, V.R, Shaw, G.L, Dehm, S.M, Mills, I.G, Carroll, J.S, Tilley, W.D, McEwan, I.J, Baniahmad, A, Neal, D.E, Asim M. A reciprocal feedback between the PDZ binding kinase and androgen receptor drives prostate cancer. Oncogene. 2018 Sep 20. doi: 10.1038/s41388-018-0501

Reese, J.M, Bruinsma, E.S, Nelson, A.W, Chernukhin, I, Carroll, J.S, Li, Y, Subramaniam, M, Suman, V.J, Negron, V, Monroe, D.G, Ingle, J.N, Goetz, M.P, Hawse, J.R. ERβ-mediated induction of cystatins results in suppression of TGFβ signaling and inhibition of triple-negative breast cancer metastasis. Proc Natl Acad Sci U S A. 2018 Oct 9;115(41):E9580-E9589

Debaize, L, Jakobczyk, H, Avner, S, Gaudichon, J, Rio, A.G, Sérandour, A.A, Dorsheimer, L, Chalmel, F, Carroll, J.S, Zörnig, M, Rieger, M.A, Delalande, O, Salbert, G, Galibert, M.D, Gandemer, V and Troadec, M.B. Interplay between transcription regulators RUNX1 and FUBP1 activates an enhancer of the oncogene c-KIT and amplifies cell proliferation. Nucleic Acids Res. 2018, 46:11214-1122

Walsh, S.J, Omarjee, S, Galloway, W.R.J.D, Kwan, T.T, Sore, H.F, Parker, J.S, Hyvönen, M, Carroll, J.S and Spring, D.R. A general approach for the site-selective modification of native proteins, enabling the generation of stable and functional antibody-drug conjugates. Chem Sci. 2018, 10:694-700

McNair C, Urbanucci A, Comstock CE, Augello MA, Goodwin JF, Launchbury R, Zhao SG, Schiewer MJ, Ertel A, Karnes J, Davicioni E, Wang L, Wang Q, Mills IG, Feng FY, Li W, Carroll JS, Knudsen KE. Cell cycle-coupled expansion of AR activity promotes cancer progression. Oncogene. 2017 Mar 23;36(12):1655-1668

Carroll JS, Hickey TE, Tarulli GA, Williams M, Tilley WD. Deciphering the divergent roles of progestogens in breast cancer. Nat Rev Cancer. 2017 Jan;17(1):54-64

Overman J, Fontaine F, Moustaqil M, Mittal D, Sierecki E, Sacilotto N, Zuegg J, Robertson AA, Holmes K, Salim AA, Mamidyala S, Butler MS, Robinson AS, Lesieur E, Johnston W, Alexandrov K, Black BL, Hogan BM, De Val S, Capon RJ, Carroll JS, Bailey TL, Koopman P, Jauch R, Smyth MJ, Cooper MA, Gambin Y, Francois M. Pharmacological targeting of the transcription factor SOX18 delays breast cancer in mice. Elife. 2017 Jan 31;6. pii: e21221

Carnesecchi J, Forcet C, Zhang L, Tribollet V, Barenton B, Boudra R, Cerutti C, Billas IM, Sérandour AA, Carroll JS, Beaudoin C, Vanacker JM. ERRα induces H3K9 demethylation by LSD1 to promote cell invasion. Proc Natl Acad Sci U S A. 2017 Apr 11;114(15):3909-3914

Dubois-Chevalier J, Dubois V, Dehondt H, Mazrooei P, Mazuy C, Sérandour AA, Gheeraert C, Penderia G, Baugé E, Derudas B, Hennuyer N, Paumelle R, Marot G, Carroll JS, Lupien M, Staels B, Lefebvre P, Eeckhoute J. The logic of transcriptional regulator recruitment architecture at cis-regulatory modules controlling liver functions. Genome Res. 2017 Apr 11. pii: gr.217075.116

Nelson AW, Groen AJ, Miller JL, Warren AY, Holmes KA, Tarulli GA, Tilley WD, Katzenellenbogen BS, Hawse JR, Gnanapragasam VJ, Carroll JS. Comprehensive assessment of estrogen receptor beta antibodies in cancer cell line models and tissue reveals critical limitations in reagent specificity. Mol Cell Endocrinol. 2017 Jan 15;440:138-150. doi: 10.1016/j.mce.2016.11.016. PMID:27889472 

Jozwik KM, Chernukhin I, Serandour AA, Nagarajan S, Carroll JS. FOXA1 Directs H3K4 Monomethylation at Enhancers via Recruitment of the Methyltransferase MLL3. Cell Rep. 2016 Dec 6;17(10):2715-2723

Hu DG, Selth LA, Tarulli GA, Meech R, Wijayakumara D, Chanawong A, Russell R, Caldas C, Robinson JL, Carroll JS, Tilley WD, Mackenzie PI, Hickey TE. Androgen and Estrogen Receptors in Breast Cancer Coregulate Human UDP-Glucuronosyltransferases 2B15 and 2B17. Cancer Res. 2016 Oct 1;76(19):5881-589

Shu S, Lin C.Y, He H.H, Witwicki R.M, Tabassum D.P, Roberts J.M, Janiszewska M, Jin Huh S, Liang Y, Ryan J, Doherty E, Mohammed H, Guo H, Stover D.G, Ekram M.B, Peluffo G, Brown J, D'Santos C, Krop I.E, Dillon D, McKeown M, Ott C, Qi J, Ni M, Rao P.K, Duarte M, Wu S.Y, Chiang C.M, Anders L, Young R.A, Winer E.P, Letai A, Barry W.T, Carroll J.S, Long H.W, Brown M, Shirley Liu X, Meyer C.A, Bradner J.E, Polyak K. “Response and resistance to BET bromodomain inhibitors in triple-negative breast cancer.” Nature. (2016 Jan 6) doi: 10.1038/nature16508. [Epub ahead of print] PMID: 26735014

Holmes K.A, Brown G.D, Carroll J.S. “Chromatin Immunoprecipitation-Sequencing (ChIP-seq) for Mapping of Estrogen Receptor-Chromatin Interactions in Breast Cancer.” Methods Mol Biol. 2016;1366:79-98. doi: 10.1007/978-1-4939-3127-9_8.

Baird R.D, Carroll J.S. “Understanding Oestrogen Receptor Function in Breast Cancer and its Interaction with the Progesterone Receptor. New Preclinical Findings and their Clinical Implications.” Clin Oncol (R Coll Radiol). 2016 Jan;28(1):1-3. doi: 10.1016/j.clon.2015.10.005.

Mohammed H, Taylor C, Brown G.D, Papachristou E.K, Carroll J.S, D'Santos C.S. “Rapid immunoprecipitation mass spectrometry of endogenous proteins (RIME) for analysis of chromatin complexes.” Nature Protocols. 2016 Feb;11(2):316-26. doi: 10.1038/nprot.2016.020. Epub 2016 Jan 21.

Heckman M.G., Robinson J.L., Tzou K.S., Parker A.S., Wu K.J., Hilton T.W., Howat W.J., Miller J.L., Kreinest P.A., Pisansky T.M., Schild S.E., Peterson J.L., Vallow L.A., Carroll J.S., Buskirk S.J. “An Examination of the Association between FOXA1 Staining Level and Biochemical Recurrence following Salvage Radiation Therapy for Recurrent Prostate Cancer.” PLoS One. 2016 Mar 17;11(3):e0151785. doi: 10.1371/journal.pone.0151785. eCollection 2016. PMID: 26986977

Carroll J.S. “Mechanisms of oestrogen receptor (ER) gene regulation in breast cancer.” Eur J Endocrinol. 2016 Jul;175(1):R41-9. doi: 10.1530/EJE-16-0124. 

Johnston S.J, Carroll J.S. “Transcription factors and chromatin proteins as therapeutic targets in cancer.” Biochim Biophys Acta.1855(2):183-192. (2015 Apr) doi: 10.1016/j.bbcan.2015.02.002

Mohammed H, Russell I.A, Stark R, Rueda O.M, Hickey T.E, Tarulli G.A, Serandour A.A, Birrell S.N, Bruna A, Saadi A, Menon S, Hadfield J, Pugh M, Raj G.V, Brown G.D, D'Santos C, Robinson J.L, Silva G, Launchbury R, Perou C.M, Stingl J, Caldas C, Tilley W.D, Carroll J.S. “Progesterone receptor modulates ERα action in breast cancer.” Nature. (2015 Jul 8). doi: 10.1038/nature14583 [Epub ahead of print]

Periyasamy M, Patel H, Lai CF, Nguyen VT, Nevedomskaya E, Harrod A, Russell R, Remenyi J, Ochocka AM, Thomas RS, Fuller-Pace F, Győrffy B, Caldas C, Navaratnam N, Carroll JS, Zwart W, Coombes RC, Magnani L, Buluwela L, Ali S. "APOBEC3B-Mediated Cytidine Deamination Is Required for Estrogen Receptor Action in Breast Cancer." Cell Rep. 2015 Oct 6;13(1):108-21. doi: 10.1016/j.celrep.2015.08.066.

Zwart W, Flach KD, Rudraraju B, Abdel-Fatah TM, Gojis O, Moore D, Nevedomskaya E, Opdam M, Droog M, Hofland I, Chan SY, Shaw J, Ellis IO, Coombes RC, Carroll JS, Ali S, Palmieri C. "SRC3 phosphorylation at Serine 543 is a positive independent prognostic factor in ER positive breast cancer." Clin Cancer Res. 2015 Sep 14. pii: clincanres.3277.2014. [Epub ahead of print]

Asim M, Massie C.E, Orafidiya F, Pértega-Gomes N, Warren A.Y, Esmaeili M, Selth L.A, Zecchini H.I, Luko K, Qureshi A, Baridi A, Menon S, Madhu B, Escriu C, Lyons S, Vowler S.L, Zecchini V.R, Shaw G, Hessenkemper W, Russell R, Mohammed H, Stefanos N, Lynch A.G, Grigorenko E, D'Santos C, Taylor C, Lamb A, Sriranjan R, Yang J, Stark R, Dehm S.M, Rennie P.S, Carroll J.S, Griffiths J.R, Tavaré S, Mills I.G, McEwan I.J, Baniahmad A, Tilley W.D, Neal D.E. “Choline Kinase Alpha as an Androgen Receptor Chaperone and Prostate Cancer Therapeutic Target.” J Natl Cancer Inst. 2015 Dec 11;108(5). pii: djv371. doi: 10.1093/jnci/djv371.

D'Santos C, Taylor C, Carroll J.S, Mohammed H. “RIME proteomics of estrogen and progesterone receptors in breast cancer.” Data Brief. 2015 Sep 3;5:276-80. doi: 10.1016/j.dib.2015.08.019

Nelson A.W, Tilley W.D, Neal D.E, Carroll J.S. "Estrogen receptor beta in prostate cancer: friend or foe?". Endocrine-related Cancer 21(4):T219-34 (2014 August). doi:10.1530/ERC-13-0508. Available online 2014 Jan 8.

Ji Z, Mohammed H, Webber A, Ridsdale J, Han N, Carroll J.S, Sharrocks A.D. “The forkhead transcription factor FOXK2 acts as a chromatin targeting factor for the BAP1-containing histone deubiquitinase complex.” Nucleic Acids Res 42(10):6232-42 (2014 June). doi: 10.1093/nar/gku274

Owens T.W, Rogers R.L, Best S.A, Ledger A, Mooney A.M, Ferguson A, Shore P, Swarbrick A, Ormandy C.J, Simpson P.T, Carroll J.S, Visvader J.E, Naylor M.J. “Runx2 is a novel regulator of mammary epithelial cell fate in development and breast cancer.” Cancer Res. 74(18):5277-86. (2014 Sep 15) doi: 10.1158/0008-5472.CAN-14-0053

Rudraraju B, Droog M, Abdel-Fatah T.M, Zwart W, Giannoudis A, Malki M.I, Moore D, Patel H, Shaw J, Ellis I.O, Chan S, Brooke G.N, Nevedomskaya E, Lo Nigro C, Carroll J, Coombes R.C, Bevan C, Ali S, Palmieri C. “Phosphorylation of activating transcription factor-2 (ATF-2) within the activation domain is a key determinant of sensitivity to tamoxifen in breast cancer.” Breast Cancer Res Treat. 147(2):295-309. (2014 Sep) doi: 10.1007/s10549-014-3098-0.

Rosell M, Nevedomskaya E, Stelloo S, Nautiyal J, Poliandri A, Steel J.H, Wessels L.F, Carroll J.S, Parker M.G, Zwart W. “Complex formation and function of estrogen receptor α in transcription requires RIP140.” Cancer Res 74(19):5469-79. (2014 Oct 1) doi: 10.1158/0008-5472.CAN-13-3429

Redmond A.M, Byrne C, Bane F.T, Brown G.D, Tibbitts P, O'Brien K, Hill A.D, Carroll J.S, Young L.S. “Genomic interaction between ER and HMGB2 identifies DDX18 as a novel driver of endocrine resistance in breast cancer cells.” Oncogene. (2014 Oct 6). doi: 10.1038/onc.2014.323 [Epub ahead of print]

Sanders D.A, Ross-Innes C.S, Beraldi D, Carroll J.S, Balasubramanium S. "Genome-wide mapping of FOXM1 binding reveals co-binding with oestrogen receptor alpha in breast cancer cells". Genome Biology 14:R6 (2013 Jan 24). doi:10.1186/gb-2013-14-1-r6

Mohammed H, D’Santos C, Serandour A.A, Ali H.R, Brown G.D, Atkins A, Rueda O.M, Holmes K.A, Theodorou V, Robinson J.L.L, Zwart W, Saadi A, Ross-Innes C.S, Chin S-F, Menon S, Stingl J,Palmieri C, Caldas C, Carroll J.S. "Endogenous purification reveals GREB1 as a key estrogen receptor regulatory factor". Cell Reports 3(2):342-349 (2013 Feb 21). doi:10.1016/j.celrep.2013.01.010

Robinson J.L.L, Holmes, K.A, Carroll J.S. "FOXA1 mutations in hormone-dependent cancers". Frontiers in Oncology 3(20) (2013 Feb 14). doi:10.3389/fonc.2013.00020

Zwart W, Koornstra R, Wesseling J, Rutgers E, Linn S, Carroll J.S. "A carrier-assisted ChIP-seq method for estrogen receptor-chromatin interactions from breast cancer core needle biopsy samples". BMC Genomics 14:232 (2013 April 8). doi:10.1186/1471-2164-14-232

Bhat-Nakshatri P, Song E.K, Collins N.R, Uversky V.N, Dunker A.K, O'Malley B.W, Geistlinger T.R, Carroll J.S, Brown M, Nakshatri H. "Interplay between estrogen receptor and AKT in Estradiol-induced alternative splicing". BMC Medical Genomics 6:21 (2013 Jun 11). doi:10.1186/1755-8794-6-21

Robinson J.L.L, Hickey T.E, Warren A.Y, Vowler S.L, Carroll T, Lamb A.D, Papoutsoglou N, Neal D.E, Tilley W.D, Carroll J.S. "Elevated levels of FOXA1 facilitate androgen receptor chromatin binding resulting in a CRPC-like phenotype". Oncogene (2013). doi:10.1038/onc.2013.508. Available online 2013 Dec 2.

Serandour A.A, Brown G.D, Cohen J.D, Carroll J.S. "Development of an Illumina-based ChIP-exonuclease method provides insight into FoxA1-DNA binding properties". Genome Biology 14:R147 (2013 Dec 27). doi:10.1186/gb-2013-14-12-r147

Theodorou V, Stark R, Menon S, Carroll J.S. "GATA3 acts upstream of FOXA1 in mediating ESR1 binding by shaping enhancer accessibility". Genome Research 23(1):12-22 (2013 Jan). doi:10.1101/gr.139469.112. Available online 2012 Nov 21.

Magnani L, Carroll J.S, Zwart W, Palmieri C. "ChIPing away at breast cancer". The Lancet Oncology 13(12):1185-1187 (2012 Dec). doi:10.1016/S1470-2045(12)70511-9.

Meyer K.B, Carroll J.S. "FOXA1 and breast cancer risk". Nature Genetics 44(11):1176-1177 (2012 Nov). doi:10.1038/ng.2449. Available online 2012 Oct 29.

Kalyuga M, Gallego-Ortega D, Lee H.J, Roden D.L, Cowley M.J, Caldon C.E, Stone A, Allerdice S.L, Valdes-Mora F, Launchbury R, Statham A.L, Armstrong N, Alles M.C, Young A, Egger A, Au W, Piggin C.L, Evans C.J, Ledger A, Brummer T, Oakes S.R, Kaplan W, Gee J.M, Nicholson R.I, Sutherland R.L, Swarbrick A, Naylor M.J, Clark S.J, Carroll J.S, Ormandy C.J. "ELF5 Suppresses Estrogen Sensitivity and Underpins the Acquisition of Antiestrogen Resistance in Luminal Breast Cancer". PLoS Biology 10(12):e1001461 (2012 Dec 27). doi:10.1371/journal.pbio.1001461.

Jozwik K.M, Carroll J.S. "Pioneer factors in hormone-dependent cancers". Nature Reviews Cancer 12(6):381-385 (2012 June). doi:10.1038/nrc3263. Available online 2012 May 4.

Robinson J.L, Carroll J.S. "FoxA1 is a key mediator of hormonal response in breast and prostate cancer". Frontiers in Endocrinology 3(68) (2012 May 18). doi:10.3389/fendo.2012.00068.

Hickey T.E, Robinson J.L.L, Carroll J.S, Tilley W.D. "Minireview: The Androgen Receptor in Breast Tissues: Growth Inhibitor, Tumor Suppressor, Oncogene?" Molecular Endocrinology 26(8):1252-1267 (2012 Aug). doi: 10.1210/me.2012-1107. Available online 2012 Jun 28.

Natrajan R, Mackay A, Lambros M.B, Weigelt B, Wilkerson P.M, Manie E, Grigoriadis A, A'hern R, van der Groep P, Kozarewa I, Popova T, Mariani O, Turajlic S, Furney S.J, Marais R, Rodruigues D.N, Flora A.C, Wai P, Pawar V, McDade S, Carroll J.S, Stoppa-Lyonnet D, Green A.R, Ellis I.O, Swanton C, van Diest P, Delattre O, Lord C.J, Foulkes W.D, Vincent-Salomon A, Ashworth A, Henri Stern M, Reis-Filho J.S. "A whole-genome massively parallel sequencing analysis of BRCA1 mutant oestrogen receptor-negative and -positive breast cancers". Journal of Pathology 227(1):29-41 (2012 May). DOI: 10.1002/path.4003. Available online 2012 Feb 23.

Krijgsman O, Roepman P, Zwart W, Carroll J.S, Tian S, de Snoo F.A, Bender R.A, Bernards R, Glas A.M. "A diagnostic gene profile for molecular subtyping of breast cancer associated with treatment response". Breast Cancer Research and Treatment 133(1):37-47 (2012 May). doi:10.1007/s10549-011-1683-z.

Ross-Innes C.S, Stark R, Teschendorff A.E, Holmes K.A, Ali H.R, Dunning M.J, Brown G.D, Gojis O, Ellis I.O, Green A.R, Ali S, Chin S.F, Palmieri C, Caldas C, Carroll J.S. "Differential oestrogen receptor binding is associated with clinical outcome in breast cancer". Nature 481(7381):389--393 (2012 Jan 19). doi:10.1038/nature10730. Available online 2012 Jan 04. Data available online: GSE32222.

Zaret K.S, Carroll J.S. "Pioneer transcription factors: establishing competence for gene expression". Genes & Development 25(21):2227-41 (2011 Nov 1). doi:10.1101/gad.176826.111.

Ross-Innes C.S, Brown G.D, Carroll J.S. "A co-ordinated interaction between CTCF and ER in breast cancer cells". BMC Genomics 12:593 (2011 Dec 5). doi:10.1186/1471-2164-12-593. Data available online: E-MTAB-739 (arrays), E-MTAB-740 (sequencing).

Zwart W, Theodorou V, Kok M, Canisius S, Linn S, Carroll J.S. "Oestrogen receptor co-factor-chromatin specificity in the transcriptional regulation of breast cancer". The EMBO Journal 30(23):4764-76 (2011 Nov 30). doi:10.1038/emboj.2011.368. Available online 2011 Oct 14. Data available online: E-MTAB-785 (sequencing), E-MTAB-788 (arrays), GSM798440, SRX014075, SRX014076 (previously published controls).

Robinson J.L.L, MacArthur S, Ross-Innes C.S, Tilley W.D, Neal D.E, Mills I.G, Carroll J.S. "Androgen Receptor driven transcription in molecular apocrine breast cancer is mediated by FoxA1". The EMBO Journal 30(15):3019-27 (2011 Aug 3). doi:10.1038/emboj.2011.216. Available online 2011 Jun 24. Data available online: E-MTAB-986.

Meyer K.B, Maia A-T, O’Reilly M, Ghoussaini M, Prathalingham R, Porter-Gill P, Ambs S, Prokunina-Olsson L, Carroll J.S, Ponder B.A.J. "A functional variant at a prostate cancer predisposition locus at 8q24 is associated with PVT1 expression". PLoS Genetics 7(7):e1002165 (2011 July). doi:10.1371/journal.pgen.1002165.

Holmes K.A, Hurtado A, Brown G.D, Launchbury R, Ross-Innes C.S, Hadfield J, Odom D.T, Carroll J.S. "Transducin-like enhancer protein 1 mediates estrogen receptor binding and transcriptional activity in breast cancer cells". Proceedings of the National Academy of Sciences 109(8):2748-2753 (2012 Feb 21). doi: 10.1073/pnas.1018863108. Available online 2011 May 02. Data available online: E-MTAB-1368.

Thiruchelvam P.T.R, Lai C-F, Hua H, Thomas R.S, Hurtado A, Hudson W, Bayly A.R, Kyle F.J, Periyasamy M, Photiou A, Spivey A.C, Ortlund E.A, Whitby R.J, Carroll J.S, Coombes R.C, Buluwela L, Ali S. "The liver receptor homolog-1 Nuclear Receptor regulates estrogen receptor expression in breast cancer cells". Breast Cancer Research and Treatment 127(2): 385-396 (2011 June). doi:10.1007/s10549-010-0994-9.

Holland D.G, Burleigh A, Git A, Goldgraben M.A, Perez-Mancera P.A, Chin S.F, Hurtado A, Bruna A, Ali H.R, Greenwood W, Dunning M.J, Samarajiwa S, Menon S, Rueda O.M, Lynch A.G, McKinney S, Ellis I.O, Eaves C.J, Carroll J.S, Curtis C, Aparicio S, Caldas C. "ZNF703 is a common Luminal B breast cancer oncogene that differentially regulates luminal and basal progenitors in human mammary epithelium". EMBO Molecular Medicine 3(3):167-80 (2011 Mar). doi: 10.1002/emmm.201100122. Available online 2011 Feb 18.

Theodorou V and Carroll J.S. "Estrogen receptor action in three dimensions – looping the loop". Breast Cancer Research 12(1): 303-304 (2010 Feb 8). doi:10.1186/bcr2470.

Ross-Innes C.S, Stark R, Holmes K.A, Schmidt D, Spyrou C, Russell R, Massie C.E, Vowler S.L, Eldridge M and Carroll J.S. "Co-operative interaction between Retinoic Acid Receptor-α and Estrogen Receptor in breast cancer". Genes and Development 24(2): 171-182 (2010 Jan 15). doi:10.1101/gad.552910.

Choy M-K, Movassagh M, Siggens L, Vujic A, Goddard M, Sanchez A, Perkins N, Figg N, Bennett M, Carroll J.S, Foo R. "High-throughput sequencing identifies STAT3 as the DNA-associated factor for p53-NF-kappaB-complex-dependent gene expression in human heart failure".  Genome Medicine 2(6): 37 (2010 June 14). doi:10.1186/gm158.

Schmidt D, Schwalie P.C, Ross-Innes C.S, Hurtado A, Brown G.D, Carroll J.S, Flicek P, Odom D.T. "A CTCF-independent role for cohesin in tissue-specific transcription". Genome Research 20(5): 578-588 (2010 May). doi: 10.1101/gr.100479.109. Available online 2010 Mar 10.

Badve S, Collins N.R, Bhat-Nakshatri P, Turbin D, Leung S, Thorat M, Dunn S.E, Geistlinger T.R, Carroll J.S, Brown M, Bose S, Teitell M.A, Nakshatri H. "Subcellular Localization of Activated AKT in ER and PR Expressing Breast Cancers: Potential Clinical Implications". American Journal of Pathology 176(5): 2139-2149 (2010 May). doi:10.2353/ajpath.2010.090477.

Zwart W, Theodorou V, Carroll, J. S. "Estrogen Receptor positive breast cancer: a multidisciplinary challenge". Wiley Interdisciplinary Reviews: Systems Biology and Medicine 3(2):216-230 (2011 Mar/Apr). doi: 10.1002/wsbm.109. Available online 2010 Jul 26.

Hurtado A, Holmes K.A, Ross-Innes C.S, Schmidt D, Carroll J.S. "FoxA1 is a key determinant of estrogen receptor function and endocrine response". Nature Genetics 43(1):27-33 (2011 Jan). doi:10.1038/ng.730. Available online 2010 Dec 12. Data available online: GSE25316, GSE25315.

Redmond A.M and Carroll J.S. "Defining and targeting transcription factors in cancer". Genome Biology 10(7):311 (2009 July 24). doi:10.1186/gb-2009-10-7-311.

Caldon C.E, Sergio C.M, Schutte J, Boersma M.N, Sutherland R.L, Carroll J.S and Musgrove E.A. "Estrogen regulation of cyclin E2 requires cyclin D1, but not c-Myc".  Molecular and Cellular Biology 29(17):4623-4639 (2009 Sept 1). doi: 10.1128/MCB.00269-09. Available online 2009 June 29.

Bhat-Nakshatri P, Wang G, Collins N, Thomson M, Geistlinger T.R, Carroll J.S, Brown M, Hammond S, Srour E, Liu Y and Nakshatri H. "Estradiol-Regulated MicroRNAs Control Estradiol Response in Breast Cancer Cells".  Nucleic Acids Research 37(14):4850-4861 (2009 August). doi: 10.1093/nar/gkp500. Available online 2009 June 14.

Wang Q, Li W, Zhang Y, Yuan X, Xu K, Yu J, Chen Z, Beroukhim R, Wang H, Lupien M, Wu T, Regan M.M, Meyer C.A, Carroll J.S, Manrai A.K, Janne O.A, Balk S.B, Mehra R, Han B, Chinnaiyan A.M, Rubin M.A, True L, Fiorentino M, Fiore C, Loda M, Kantoff P.W, Liu X.S and Brown M. "Androgen Receptor Regulates a Distinct Transcription Program in Androgen-Independent Prostate Cancer".  Cell 138(2):245-256 (2009 July 23). doi:10.1016/j.cell.2009.04.056.

Nucera C, Eeckhoute J, Finn S, Carroll J.S, Ligon A.H, Priolo C, Fadda G, Toner M, Sheils O, Attard M, Pontecorvi A, Nose V, Loda M and Brown M. "FOXA1 Is a Potential Oncogene in Anaplastic Thyroid Carcinoma".  Clinical Cancer Resesearch 15(11):3680-3689 (2009 June 1). doi: 10.1158/1078-0432.CCR-08-3155. Available online 2009 May 26.

Xia X, Lemieux M.E, Li W, Carroll J.S, Brown M, Liu X.S and Kung A.L. "Integrative analysis of HIF binding and transactivation reveals its role in maintaining histone methylation homeostasis". Proceedings of the National Academy of Sciences 106(11):4260-4265 (2009 March 17). doi: 10.1073/pnas.0810067106. Available online 2009 March 2.

Bhat-Nakshatri P, Wang G, Appaiah H, Luktuke N, Carroll J.S, Geistlinger T.R, Brown M, Badve S, Liu Y, Nakshatri H. "AKT alters genome-wide Estrogen Receptor alpha binding and impacts estrogen signalling in breast cancer". Molecular and Cellular Biology 28(24):7487-7503 (2008 December 15). doi:10.1128/MCB.00799-08. Available online 2008 October 6.

Hurtado T, Holmes K.A, Geistlinger T.R, Hutcheson I.A, Nicholson R.I, Brown M, Jiang J, Howat W, Ali S, Carroll J.S. "Regulation of ERBB2 by oestrogen receptor-PAX2 determines response to tamoxifen". Nature 456(7222):663-667 (2008 December 4).  doi:10.1038/nature07483. Available online 2008 November 12.

Holmes K.A, Song J.S, Liu X.S, Brown M, Carroll J.S. "Nkx3-1 and LEF-1 function as transcriptional inhibitors of Estrogen Receptor activity". Cancer Research 68(18):7380-7385 (2008 September 15). doi: 10.1158/0008-5472.CAN-08-0133.

Krum S.A, Miranda-Carboni G.A, Lupien M, Eeckhoute J, Carroll J.S, Brown, M. "Unique ER-alpha cistromes control cell type-specific gene regulation". Molecular Endocrinology 22(11):2393-2406 (2008 November 1). doi: 10.1210/me.2008-0100. Available online 2008 September 25.

Li W, Carroll J.S, Brown M and Liu X.S. "xMAN: extreme MApping of OligoNucletoides". BMC Genomics 9(Suppl 1):S20 (2008 March 20). doi:10.1186/1471-2164-9-S1-S20.

Johnson D.S, Li W, Gordon D.B, Bhattacharjee A, Curry B, Ghosh J, Brizuela L, Carroll J.S, Brown M et. al. "Systematic evaluation of variability in ChIP-chip experiments using predefined DNA targets". Genome Research 18(3):393-403 (2008 March ). doi: 10.1101/gr.7080508. Available online 2008 February 7.

Dietz S.C and Carroll J.S. "Interrogating the genome to understand ER transcription in breast cancer cells". Expert Reviews in Molecular Medicine 10:e10 (2008 April 1). http://dx.doi.org/10.1017/S1462399408000653.

Lupien M, Eeckhoute J, Meyer C.A, Wang Q, Zhang Y, Li W, Carroll J.S, Liu X.S, Brown, M. "FoxA1 translates epigenetic signatures into enhancer driven lineage-specific transcription". Cell 132(6):958-970 (2008 March 21). link to Cell.

Krum S.A, Miranda-Carboni G.A, Hauschka P.V, Carroll J.S, Lane T.F, Freedman L.P, Brown M. "Estrogen protects bone by inducing Fas ligand in Osteoblasts to regulate Osteoclast survival". EMBO Journal 27(3):535-545 (2008 February 6). doi:10.1038/sj.emboj.7601984. Available online 2008 January 24.

Green K.A, Carroll J.S. "Oestrogen receptor-mediated transcription and the influence of co-factors and chromatin state". Nature Reviews Cancer 7(9):713-722 (2007 September). doi:10.1038/nrc2211.

Eeckhoute J, Keeton E.K, Lupien M, Krum S.A, Carroll J.S and Brown M. "Positive cross-regulatory loop ties GATA-3 to estrogen receptor alpha expression in breast cancer". Cancer Research 67(13):6477-6483 (2007 July 1). doi:10.1158/0008-5472.CAN-07-0746.

Schmelzle T, Mailleux A.A, Overholtzer M, Carroll J.S, Solimini N.L, Lightcap E.S, Veiby O.P and Brugge J.S. "Functional role and oncogene-regulated expression of the BH3-only factor Bmf in mammary epithelial anoikis and morphogenesis". Proceedings of the National Academy of Sciences 104(10):3787-3792 (2007 March 6). doi:10.1073/pnas.0700115104. Available online 2007 February 26.

Wang Q, Li W, Liu X.S, Carroll J.S, Janne O.A, Chinnaiyan A.M, Pienta K.J and Brown M. "A Hierarchical Network of Transcription Factors Governs Androgen Receptor-Dependent Prostate Cancer Growth". Molecular Cell 27(3):380-392 (2007 August 3). doi:10.1016/j.molcel.2007.05.041.

Carroll J.S, Meyer C.A, Song J, Li W, Geistlinger T.R, Eeckhoute J, Brodsky A.S, Keeton E.K, Fertuck K.C, Hall G.F, Wang Q, Bekiranov S, Sementchenko V, Fox E.A, Silver P.A, Gingeras T.R, Liu X.S, Brown, M. "Genome-wide analysis of Estrogen Receptor binding sites". Nature Genetics 38(11):1289-1297 (2006 November). doi:10.1038/ng1901. Available online 2006 October 1.

Eeckhoute J, Carroll J.S, Geistlinger T.R, Torres-Arzayus M.I, Brown M. "A cell-type-specific transcriptional network required for estrogen regulation of cyclin D1 and cell cycle progression in breast cancer". Genes and Development 20(18):2513-2526 (2006 September 15). doi: 10.1101/gad.1446006.

Johnson W. E, Li W, Meyer C. A, Gottardo R, Carroll J. S, Brown M, Liu X. S. "MAT: Model-based analysis of tiling-arrays for ChIP-chip". Proceedings of the National Academy of Sciences 103(33):12457-12462 (2006 August 15). doi:10.1073/pnas.0601180103. Available online 2006 August 8.

Carroll J.S, Brown M. "Estrogen Receptor Target Gene: an Evolving Concept". Molecular Endocrinology 20(8):1707-1714 (2006 August 1). doi:10.1210/me.2005-0334. Available online 2006 January 5.

Carroll D.K, Carroll J.S, Sofer A, Cheng F, Brown M, Mills A.A, Brugge J.S and Ellisen L.W. "p63 regulates an adhesion program and cell survival in epithelial cells". Nature Cell Biology 8(6):551-561 (2006 June). doi:10.1038/ncb1420. Available online 2006 May 21.

Wang Q, Carroll J.S and Brown M. "Spatial and Temporal Recruitment of Androgen Receptor and Its Coactivators Involves Chromosomal Looping and Polymerase Tracking". Molecular Cell 19(5):631-642 (2005 September 2). doi:10.1016/j.molcel.2005.07.018.

Carroll J.S, Liu X.S, Brodsky A.S, Meyer C.A, Li W, Szary A.J, Eeckhoute J, Shao W, Hestermann E.V, Geistlinger T.R, Fox E.A, Silver P.A, Brown M. "Chromosome-Wide Mapping of Estrogen Receptor Binding Reveals Long-Range Regulation Requiring the Forkhead Protein FoxA1". Cell 122(1):33-43 (2005 July 15). doi:10.1016/j.cell.2005.05.008.

Mawson A, Lai A, Carroll J.S, Sergio C.M, Mitchell C.J, Sarcevic, B. "Estrogen and insulin/IGF-I cooperatively stimulate cell cycle progression in MCF-7 breast cancer cells through regulation of c-Myc and cyclin D1". Molecular and Cellular Endocrinology 229(1-2):161-173 (2005 January 14).

Doisneau-Sixou S.F, Cestac P, Chouini S, Carroll J.S, Hamilton A.D, Sebti S.M, Poirot M, Balaguer P, Faye J.C, Sutherland R.L, Favre, G. "Contrasting Effects of Prenyltransferase Inhibitors on Estrogen-Dependent Cell Cycle Progression and Estrogen Receptor-Mediated Transcriptional Activity in MCF-7 Cells". Endocrinology 144(3):989-998 (2003 March 1). doi:10.1210/en.2002-220726.

Doisneau-Sixou S.F, Sergio C.M, Carroll J.S, Hui R, Musgrove E.A, Sutherland, R.L. "Estrogen and antiestrogen regulation of cell cycle progression in breast cancer cells". Endocrine Related Cancer 10(2):179-186 (2003 June). doi:10.1677/erc.0.0100179.

Carroll J.S, Lynch D.K, Swarbrick A, Renoir, J-M Sarcevic B, Daly R.J, Musgrove E.A, Sutherland R.L. "p27^Kip1 Induces Quiescence and Growth Factor Insensitivity in Tamoxifen-treated Breast Cancer Cells". Cancer Research 63(15):4322-4326 (2003 August 1). link.

Carroll J.S, Swarbrick A, Musgrove E. A, Sutherland R.L. "Mechanisms of Growth Arrest by c-myc Antisense Oligonucleotides in MCF-7 Breast Cancer Cells: Implications for the Antiproliferative Effects of Antiestrogens". Cancer Research 62(11):3126-3131 (2002 June 1). link.

Hui R, Finney G.L, Carroll J.S, Lee C.S, Musgrove E.A and Sutherland R.L. "Constitutive Overexpression of Cyclin D1 but not Cyclin E Confers Acute Resistance to Antiestrogens in T-47D Breast Cancer Cells". Cancer Research 62(23):6916-6923 (2002 December 1). link.

Prall O.W.J, Carroll J.S, Sutherland R.L. "A Low Abundance Pool of Nascent p21^WAF1/Cip1 Is Targeted by Estrogen to Activate Cyclin E·Cdk2". Journal of Biological Chemistry 276(48):45433-45442 (2001 November 30). doi:10.1074/jbc.M104752200

Carroll J.S, Prall O.W.J, Musgrove E.A, Sutherland R.L. "A Pure Estrogen Antagonist Inhibits Cyclin E-Cdk2 Activity in MCF-7 Breast Cancer Cells and Induces Accumulation of p130-E2F4 Complexes Characteristic of Quiescence". Journal of Biological Chemistry 275(49):38221-38229 (2000 December 8). doi:10.1074/jbc.M004424200. Available online 2000 September 15.