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Nutrient Deprivation Elicits a Transcriptional and Translational Inflammatory Response Coupled to Decreased Protein Synthesis.

Gameiro PA, Struhl K.

Cell Rep. 2018 Aug 7;24(6):1415-1424. doi: 10.1016/j.celrep.2018.07.021.


Genome-scale identification of transcription factors that mediate an inflammatory network during breast cellular transformation.

Ji Z, He L, Rotem A, Janzer A, Cheng CS, Regev A, Struhl K.

Nat Commun. 2018 May 25;9(1):2068. doi: 10.1038/s41467-018-04406-2.


Correction: Evidence that Mediator is essential for Pol II transcription, but is not a required component of the preinitiation complex in vivo.

Petrenko N, Jin Y, Wong KH, Struhl K.

Elife. 2017 Sep 18;6. pii: e32061. doi: 10.7554/eLife.32061. No abstract available.


The Ground State and Evolution of Promoter Region Directionality.

Jin Y, Eser U, Struhl K, Churchman LS.

Cell. 2017 Aug 24;170(5):889-898.e10. doi: 10.1016/j.cell.2017.07.006. Epub 2017 Aug 10.


Evidence that Mediator is essential for Pol II transcription, but is not a required component of the preinitiation complex in vivo.

Petrenko N, Jin Y, Wong KH, Struhl K.

Elife. 2017 Jul 12;6. pii: e28447. doi: 10.7554/eLife.28447. Erratum in: Elife. 2017 Sep 18;6:.


Mediator Undergoes a Compositional Change during Transcriptional Activation.

Petrenko N, Jin Y, Wong KH, Struhl K.

Mol Cell. 2016 Nov 3;64(3):443-454. doi: 10.1016/j.molcel.2016.09.015. Epub 2016 Oct 20.


LINC00520 is induced by Src, STAT3, and PI3K and plays a functional role in breast cancer.

Henry WS, Hendrickson DG, Beca F, Glass B, Lindahl-Allen M, He L, Ji Z, Struhl K, Beck AH, Rinn JL, Toker A.

Oncotarget. 2016 Dec 13;7(50):81981-81994. doi: 10.18632/oncotarget.11962.


Selectivity of ORC binding sites and the relation to replication timing, fragile sites, and deletions in cancers.

Miotto B, Ji Z, Struhl K.

Proc Natl Acad Sci U S A. 2016 Aug 16;113(33):E4810-9. doi: 10.1073/pnas.1609060113. Epub 2016 Jul 19.


Transcriptome-scale RNase-footprinting of RNA-protein complexes.

Ji Z, Song R, Huang H, Regev A, Struhl K.

Nat Biotechnol. 2016 Apr;34(4):410-3. doi: 10.1038/nbt.3441. Epub 2016 Feb 22.


Many lncRNAs, 5'UTRs, and pseudogenes are translated and some are likely to express functional proteins.

Ji Z, Song R, Regev A, Struhl K.

Elife. 2015 Dec 19;4:e08890. doi: 10.7554/eLife.08890.


Alternative to the soft-agar assay that permits high-throughput drug and genetic screens for cellular transformation.

Rotem A, Janzer A, Izar B, Ji Z, Doench JG, Garraway LA, Struhl K.

Proc Natl Acad Sci U S A. 2015 May 5;112(18):5708-13. doi: 10.1073/pnas.1505979112. Epub 2015 Apr 20.


Mapping 3' mRNA isoforms on a genomic scale.

Jin Y, Geisberg JV, Moqtaderi Z, Ji Z, Hoque M, Tian B, Struhl K.

Curr Protoc Mol Biol. 2015 Apr 1;110:4.23.1-17. doi: 10.1002/0471142727.mb0423s110.


STAT3 acts through pre-existing nucleosome-depleted regions bound by FOS during an epigenetic switch linking inflammation to cancer.

Fleming JD, Giresi PG, Lindahl-Allen M, Krall EB, Lieb JD, Struhl K.

Epigenetics Chromatin. 2015 Feb 14;8:7. doi: 10.1186/1756-8935-8-7. eCollection 2015.


Metformin and phenformin deplete tricarboxylic acid cycle and glycolytic intermediates during cell transformation and NTPs in cancer stem cells.

Janzer A, German NJ, Gonzalez-Herrera KN, Asara JM, Haigis MC, Struhl K.

Proc Natl Acad Sci U S A. 2014 Jul 22;111(29):10574-9. doi: 10.1073/pnas.1409844111. Epub 2014 Jul 7.


TFIIH phosphorylation of the Pol II CTD stimulates mediator dissociation from the preinitiation complex and promoter escape.

Wong KH, Jin Y, Struhl K.

Mol Cell. 2014 May 22;54(4):601-12. doi: 10.1016/j.molcel.2014.03.024. Epub 2014 Apr 17.


Is DNA methylation of tumour suppressor genes epigenetic?

Struhl K.

Elife. 2014 Mar 12;3:e02475. doi: 10.7554/eLife.02475.


Global analysis of mRNA isoform half-lives reveals stabilizing and destabilizing elements in yeast.

Geisberg JV, Moqtaderi Z, Fan X, Ozsolak F, Struhl K.

Cell. 2014 Feb 13;156(4):812-24. doi: 10.1016/j.cell.2013.12.026.


Species-specific factors mediate extensive heterogeneity of mRNA 3' ends in yeasts.

Moqtaderi Z, Geisberg JV, Jin Y, Fan X, Struhl K.

Proc Natl Acad Sci U S A. 2013 Jul 2;110(27):11073-8. doi: 10.1073/pnas.1309384110. Epub 2013 Jun 17.


NF-Y coassociates with FOS at promoters, enhancers, repetitive elements, and inactive chromatin regions, and is stereo-positioned with growth-controlling transcription factors.

Fleming JD, Pavesi G, Benatti P, Imbriano C, Mantovani R, Struhl K.

Genome Res. 2013 Aug;23(8):1195-209. doi: 10.1101/gr.148080.112. Epub 2013 Apr 17.

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