Publications & Talks
SELECTED PUBLICATIONS
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Gastruloids Gain Muscle: Somite Formation in Embryo-Like Structures.
Rosado-Olivieri EA, Brivanlou AH.
Cell Stem Cell. 2020 Apr 2;26(4):467-468. doi: 10.1016/j.stem.2020.03.011.
PMID: 32243802
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Mapping cell migrations and fates in a gastruloid model to the human primitive streak.
Martyn I, Siggia ED, Brivanlou AH
Development. 2019 Sep 12;146(17). pii: dev179564. doi: 10.1242/dev.179564.
PMID: 31427289c
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Haremaki T, Metzger JJ, Rito T, Ozair MZ, Etoc F, Brivanlou AH.
Nat Biotechnol. 2019 Oct;37(10):1198-1208. doi: 10.1038/s41587-019-0237-5. Epub 2019 Sep 9.
PMID: 31501559
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A 3D model of a human epiblast reveals BMP4-driven symmetry breaking.
Simunovic M, Metzger JJ, Etoc F, Yoney A, Ruzo A, Martyn I, Croft G, You DS, Brivanlou AH, Siggia ED.
Nat Cell Biol. 2019 Jul;21(7):900-910. doi: 10.1038/s41556-019-0349-7. Epub 2019 Jul 1.
PMID: 31263269
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Martyn I, Brivanlou AH, Siggia ED.
Development. 2019 Mar 25;146(6). pii: dev172791. doi: 10.1242/dev.172791.
PMID: 30814117v
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Chick Models and Human-Chick Organizer Grafts.
Martyn I, Kanno TY, Brivanlou AH.
Methods Mol Biol. 2019;2005:77-89. doi: 10.1007/978-1-4939-9524-0_6.
PMID: 31175647
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Author Correction: Self-organization of a human organizer by combined Wnt and Nodal signalling.
Martyn I, Kanno TY, Ruzo A, Siggia ED, Brivanlou AH.
Nature. 2018 Dec;564(7735):E10. doi: 10.1038/s41586-018-0583-3.
PMID: 30420607
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WNT signaling memory is required for ACTIVIN to function as a morphogen in human gastruloids.
Yoney A, Etoc F, Ruzo A, Carroll T, Metzger JJ, Martyn I, Li S, Kirst C, Siggia ED, Brivanlou AH.
Elife. 2018 Oct 12;7. pii: e38279. doi: 10.7554/eLife.38279.
PMID: 30311909
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Synthetic embryology: controlling geometry to model early mammalian development.
Metzger JJ, Simunovic M, Brivanlou AH.
Curr Opin Genet Dev. 2018 Oct;52:86-91. doi: 10.1016/j.gde.2018.06.006. Epub 2018 Jun 27. Review.
PMID: 29957587
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Ozair MZ, Kirst C, van den Berg BL, Ruzo A, Rito T, Brivanlou AH.
Cell Stem Cell. 2018 Jul 5;23(1):60-73.e6. doi: 10.1016/j.stem.2018.05.024. Epub 2018 Jun 21.
PMID: 29937203
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Self-organization of a human organizer by combined Wnt and Nodal signalling.
Martyn I, Kanno TY, Ruzo A, Siggia ED, Brivanlou AH.
Nature. 2018 Jun;558(7708):132-135. doi: 10.1038/s41586-018-0150-y. Epub 2018 May 23. Erratum in: Nature. 2018 Dec;564(7735):E10.
PMID: 29795348
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Chromosomal instability during neurogenesis in Huntington’s disease.
Ruzo A, Croft GF, Metzger JJ, Galgoczi S, Gerber LJ, Pellegrini C, Wang H Jr, Fenner M, Tse S, Marks A, Nchako C, Brivanlou AH.
Development. 2018 Jan 29;145(2). pii: dev156844. doi: 10.1242/dev.156844.
PMID: 29378824
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Preface: Current Topics in Developmental Biology Volume 129, 2018
Brivanlou AH.
Curr Top Dev Biol. 2018;129:xi-xiii. doi: 10.1016/S0070-2153(18)30058-9. No abstract available.
PMID: 29801533
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At Last: Gene Editing in Human Embryos to Understand Human Development.
Ruzo A, Brivanlou AH.
Cell Stem Cell. 2017 Nov 2;21(5):564-565. doi: 10.1016/j.stem.2017.10.008.
PMID: 29100008
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Embryoids, organoids and gastruloids: new approaches to understanding embryogenesis.
Simunovic M, Brivanlou AH.
Development. 2017 Mar 15;144(6):976-985. doi: 10.1242/dev.143529. Review.
PMID: 28292844
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Qi Y, Zhang XJ, Renier N, Wu Z, Atkin T, Sun Z, Ozair MZ, Tchieu J, Zimmer B, Fattahi F, Ganat Y, Azevedo R, Zeltner N, Brivanlou AH, Karayiorgou M, Gogos J, Tomishima M, Tessier-Lavigne M, Shi SH, Studer L.
Nat Biotechnol. 2017 Feb;35(2):154-163. doi: 10.1038/nbt.3777. Epub 2017 Jan 23.
PMID: 28112759
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Role of MicroRNAs in Zygotic Genome Activation: Modulation of mRNA During Embryogenesis.
Rosa A, Brivanlou AH.
Methods Mol Biol. 2017;1605:31-43. doi: 10.1007/978-1-4939-6988-3_3. Review.
PMID: 28456956
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Self-organization of human embryonic stem cells on micropatterns.
Deglincerti A, Etoc F, Guerra MC, Martyn I, Metzger J, Ruzo A, Simunovic M, Yoney A, Brivanlou AH, Siggia E, Warmflash A.
Nat Protoc. 2016 Nov;11(11):2223-2232. doi: 10.1038/nprot.2016.131. Epub 2016 Oct 13.
PMID: 27735934
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A Balance between Secreted Inhibitors and Edge Sensing Controls Gastruloid Self-Organization.
Etoc F, Metzger J, Ruzo A, Kirst C, Yoney A, Ozair MZ, Brivanlou AH, Siggia ED.
Dev Cell. 2016 Nov 7;39(3):302-315. doi: 10.1016/j.devcel.2016.09.016. Epub 2016 Oct 13.
PMID: 27746044
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Self-organization of the in vitro attached human embryo.
Deglincerti A, Croft GF, Pietila LN, Zernicka-Goetz M, Siggia ED, Brivanlou AH.
Nature. 2016 May 12;533(7602):251-4. doi: 10.1038/nature17948. Epub 2016 May 4.
PMID: 27144363
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Self-Organization of Spatial Patterning in Human Embryonic Stem Cells.
Deglincerti A, Etoc F, Ozair MZ, Brivanlou AH.
Curr Top Dev Biol. 2016;116:99-113. doi: 10.1016/bs.ctdb.2015.11.010. Epub 2016 Feb 2. Review.
PMID: 26970615
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Coco is a dual activity modulator of TGFβ signaling.
Deglincerti A, Haremaki T, Warmflash A, Sorre B, Brivanlou AH.
Development. 2015 Aug 1;142(15):2678-85. doi: 10.1242/dev.122358. Epub 2015 Jun 26.
PMID: 26116664
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Coco is a dual activity modulator of TGFβ signaling.
Deglincerti A, Haremaki T, Warmflash A, Sorre B, Brivanlou AH.
Development. 2015 Aug 1;142(15):2678-85. doi: 10.1242/dev.122358. Epub 2015 Jun 26.
PMID: 26116664
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Warmflash A, Zhang Q, Brivanlou AH, Siggia ED.
Sci Signal. 2014 Sep 23;7(344):lc1. doi: 10.1126/scisignal.2005562.
PMID: 25249655
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Encoding of temporal signals by the TGF-β pathway and implications for embryonic patterning.
Sorre B, Warmflash A, Brivanlou AH, Siggia ED.
Dev Cell. 2014 Aug 11;30(3):334-42. doi: 10.1016/j.devcel.2014.05.022. Epub 2014 Jul 24.
PMID: 25065773
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A method to recapitulate early embryonic spatial patterning in human embryonic stem cells.
Warmflash A, Sorre B, Etoc F, Siggia ED, Brivanlou AH.
Nat Methods. 2014 Aug;11(8):847-54. doi: 10.1038/nmeth.3016. Epub 2014 Jun 29.
PMID: 24973948
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SMAD7 directly converts human embryonic stem cells to telencephalic fate by a default mechanism.
Ozair MZ, Noggle S, Warmflash A, Krzyspiak JE, Brivanlou AH.
Stem Cells. 2013 Jan;31(1):35-47. doi: 10.1002/stem.1246.
PMID: 23034881
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Signaling dynamics and embryonic development.
Warmflash A, Siggia ED, Brivanlou AH.
Cell Cycle. 2012 Oct 1;11(19):3529-30. doi: 10.4161/cc.21964. Epub 2012 Aug 30.
PMID: 22935712
Dr. Ali Brivanlou
Gastruloids Gain Muscle: Somite Formation in Embryo-Like Structures.
Rosado-Olivieri EA, Brivanlou AH.
Cell Stem Cell. 2020 Apr 2;26(4):467-468. doi: 10.1016/j.stem.2020.03.011.
PMID: 32243802
Haremaki T, Metzger JJ, Rito T, Ozair MZ, Etoc F, Brivanlou AH.
Nat Biotechnol. 2019 Oct;37(10):1198-1208. doi: 10.1038/s41587-019-0237-5. Epub 2019 Sep 9.
PMID: 31501559
Mapping cell migrations and fates in a gastruloid model to the human primitive streak.
Martyn I, Siggia ED, Brivanlou AH.
Development. 2019 Sep 12;146(17). pii: dev179564. doi: 10.1242/dev.179564.
PMID: 31427289
A 3D model of a human epiblast reveals BMP4-driven symmetry breaking.
Simunovic M, Metzger JJ, Etoc F, Yoney A, Ruzo A, Martyn I, Croft G, You DS, Brivanlou AH, Siggia ED.
Nat Cell Biol. 2019 Jul;21(7):900-910. doi: 10.1038/s41556-019-0349-7. Epub 2019 Jul 1.
PMID: 31263269
Chick Models and Human-Chick Organizer Grafts.
Martyn I, Kanno TY, Brivanlou AH.
Methods Mol Biol. 2019;2005:77-89. doi: 10.1007/978-1-4939-9524-0_6.
PMID: 31175647
Martyn I, Brivanlou AH, Siggia ED.
Development. 2019 Mar 25;146(6). pii: dev172791. doi: 10.1242/dev.172791.
PMID: 30814117
Author Correction: Self-organization of a human organizer by combined Wnt and Nodal signalling.
Martyn I, Kanno TY, Ruzo A, Siggia ED, Brivanlou AH.
Nature. 2018 Dec;564(7735):E10. doi: 10.1038/s41586-018-0583-3.
PMID: 30420607
WNT signaling memory is required for ACTIVIN to function as a morphogen in human gastruloids.
Yoney A, Etoc F, Ruzo A, Carroll T, Metzger JJ, Martyn I, Li S, Kirst C, Siggia ED, Brivanlou AH.
Elife. 2018 Oct 12;7. pii: e38279. doi: 10.7554/eLife.38279.
PMID: 30311909
Synthetic embryology: controlling geometry to model early mammalian development.
Metzger JJ, Simunovic M, Brivanlou AH.
Curr Opin Genet Dev. 2018 Oct;52:86-91. doi: 10.1016/j.gde.2018.06.006. Epub 2018 Jun 27. Review.
PMID: 29957587
Ozair MZ, Kirst C, van den Berg BL, Ruzo A, Rito T, Brivanlou AH.
Cell Stem Cell. 2018 Jul 5;23(1):60-73.e6. doi: 10.1016/j.stem.2018.05.024. Epub 2018 Jun 21.
PMID: 29937203
Brivanlou AH.
Curr Top Dev Biol. 2018;129:xi-xiii. doi: 10.1016/S0070-2153(18)30058-9. No abstract available.
PMID: 29801533
Self-organization of a human organizer by combined Wnt and Nodal signalling.
Martyn I, Kanno TY, Ruzo A, Siggia ED, Brivanlou AH.
Nature. 2018 Jun;558(7708):132-135. doi: 10.1038/s41586-018-0150-y. Epub 2018 May 23. Erratum in: Nature. 2018 Dec;564(7735):E10.
PMID: 29795348
Chromosomal instability during neurogenesis in Huntington’s disease.
Ruzo A, Croft GF, Metzger JJ, Galgoczi S, Gerber LJ, Pellegrini C, Wang H Jr, Fenner M, Tse S, Marks A, Nchako C, Brivanlou AH.
Development. 2018 Jan 29;145(2). pii: dev156844. doi: 10.1242/dev.156844.
PMID: 29378824
At Last: Gene Editing in Human Embryos to Understand Human Development.
Ruzo A, Brivanlou AH.
Cell Stem Cell. 2017 Nov 2;21(5):564-565. doi: 10.1016/j.stem.2017.10.008.
PMID: 29100008
Role of MicroRNAs in Zygotic Genome Activation: Modulation of mRNA During Embryogenesis.
Rosa A, Brivanlou AH.
Methods Mol Biol. 2017;1605:31-43. doi: 10.1007/978-1-4939-6988-3_3. Review.
PMID: 28456956
Embryoids, organoids and gastruloids: new approaches to understanding embryogenesis.
Simunovic M, Brivanlou AH.
Development. 2017 Mar 15;144(6):976-985. doi: 10.1242/dev.143529. Review.
PMID: 28292844
Qi Y, Zhang XJ, Renier N, Wu Z, Atkin T, Sun Z, Ozair MZ, Tchieu J, Zimmer B, Fattahi F, Ganat Y, Azevedo R, Zeltner N, Brivanlou AH, Karayiorgou M, Gogos J, Tomishima M, Tessier-Lavigne M, Shi SH, Studer L.
Nat Biotechnol. 2017 Feb;35(2):154-163. doi: 10.1038/nbt.3777. Epub 2017 Jan 23.
PMID: 28112759
A Balance between Secreted Inhibitors and Edge Sensing Controls Gastruloid Self-Organization.
Etoc F, Metzger J, Ruzo A, Kirst C, Yoney A, Ozair MZ, Brivanlou AH, Siggia ED.
Dev Cell. 2016 Nov 7;39(3):302-315. doi: 10.1016/j.devcel.2016.09.016. Epub 2016 Oct 13.
PMID: 27746044
Self-organization of human embryonic stem cells on micropatterns.
Deglincerti A, Etoc F, Guerra MC, Martyn I, Metzger J, Ruzo A, Simunovic M, Yoney A, Brivanlou AH, Siggia E, Warmflash A.
Nat Protoc. 2016 Nov;11(11):2223-2232. doi: 10.1038/nprot.2016.131. Epub 2016 Oct 13.
PMID: 27735934
Self-organization of the in vitro attached human embryo.
Deglincerti A, Croft GF, Pietila LN, Zernicka-Goetz M, Siggia ED, Brivanlou AH.
Nature. 2016 May 12;533(7602):251-4. doi: 10.1038/nature17948. Epub 2016 May 4.
PMID: 27144363
Self-Organization of Spatial Patterning in Human Embryonic Stem Cells.
Deglincerti A, Etoc F, Ozair MZ, Brivanlou AH.
Curr Top Dev Biol. 2016;116:99-113. doi: 10.1016/bs.ctdb.2015.11.010. Epub 2016 Feb 2. Review.
PMID: 26970615
Human SCNT Gets a Boost from Histone Demethylation.
Deglincerti A, Brivanlou AH.
Cell Stem Cell. 2015 Dec 3;17(6):641-642. doi: 10.1016/j.stem.2015.11.014.
PMID: 26637938
Huntingtin is required for ciliogenesis and neurogenesis during early Xenopus development.
Haremaki T, Deglincerti A, Brivanlou AH.
Dev Biol. 2015 Dec 15;408(2):305-15. doi: 10.1016/j.ydbio.2015.07.013. Epub 2015 Jul 17.
PMID: 26192473
Coco is a dual activity modulator of TGFβ signaling.
Deglincerti A, Haremaki T, Warmflash A, Sorre B, Brivanlou AH.
Development. 2015 Aug 1;142(15):2678-85. doi: 10.1242/dev.122358. Epub 2015 Jun 26.
PMID: 26116664
Discovery of novel isoforms of huntingtin reveals a new hominid-specific exon.
Ruzo A, Ismailoglu I, Popowski M, Haremaki T, Croft GF, Deglincerti A, Brivanlou AH.
PLoS One. 2015 May 26;10(5):e0127687. doi: 10.1371/journal.pone.0127687. eCollection 2015.
PMID: 26010866
Deglincerti A, Brivanlou AH.
Cell Res. 2015 Mar;25(3):267-8. doi: 10.1038/cr.2015.18. Epub 2015 Feb 20.
PMID: 25698577
Warmflash A, Zhang Q, Brivanlou AH, Siggia ED.
Sci Signal. 2014 Sep 23;7(344):lc1. doi: 10.1126/scisignal.2005562.
PMID: 25249655
Encoding of temporal signals by the TGF-β pathway and implications for embryonic patterning.
Sorre B, Warmflash A, Brivanlou AH, Siggia ED.
Dev Cell. 2014 Aug 11;30(3):334-42. doi: 10.1016/j.devcel.2014.05.022. Epub 2014 Jul 24.
PMID: 25065773
A method to recapitulate early embryonic spatial patterning in human embryonic stem cells.
Warmflash A, Sorre B, Etoc F, Siggia ED, Brivanlou AH.
Nat Methods. 2014 Aug;11(8):847-54. doi: 10.1038/nmeth.3016. Epub 2014 Jun 29.
PMID: 24973948
Ismailoglu I, Chen Q, Popowski M, Yang L, Gross SS, Brivanlou AH.
Dev Biol. 2014 Jul 15;391(2):230-40. doi: 10.1016/j.ydbio.2014.04.005. Epub 2014 Apr 26.
PMID: 24780625
Rosa A, Papaioannou MD, Krzyspiak JE, Brivanlou AH.
Dev Biol. 2014 Jul 1;391(1):81-8. doi: 10.1016/j.ydbio.2014.03.020. Epub 2014 Apr 4.
PMID: 24709321
Coco regulates dorsoventral specification of germ layers via inhibition of TGFβ signalling.
Bates TJ, Vonica A, Heasman J, Brivanlou AH, Bell E.
Development. 2013 Oct;140(20):4177-81. doi: 10.1242/dev.095521. Epub 2013 Sep 11.
PMID: 24026124
Neural induction and early patterning in vertebrates.
Ozair MZ, Kintner C, Brivanlou AH.
Wiley Interdiscip Rev Dev Biol. 2013 Jul;2(4):479-98. doi: 10.1002/wdev.90. Epub 2012 Oct 15. Review.
PMID: 24014419
Regulatory non-coding RNAs in pluripotent stem cells.
Rosa A, Brivanlou AH.
Int J Mol Sci. 2013 Jul 11;14(7):14346-73. doi: 10.3390/ijms140714346. Review.
PMID: 23852015
Whitman M, Rosen V, Brivanlou AH, Groppe JC, Sebald W, Mueller T.
Nat Med. 2013 Jul;19(7):809-10. doi: 10.1038/nm.3080. No abstract available.
PMID: 23836213
SMAD7 directly converts human embryonic stem cells to telencephalic fate by a default mechanism.
Ozair MZ, Noggle S, Warmflash A, Krzyspiak JE, Brivanlou AH.
Stem Cells. 2013 Jan;31(1):35-47. doi: 10.1002/stem.1246.
PMID: 23034881
Signaling dynamics and embryonic development.
Warmflash A, Siggia ED, Brivanlou AH.
Cell Cycle. 2012 Oct 1;11(19):3529-30. doi: 10.4161/cc.21964. Epub 2012 Aug 30. No abstract available.
PMID: 22935712
The BMP inhibitor Coco reactivates breast cancer cells at lung metastatic sites.
Gao H, Chakraborty G, Lee-Lim AP, Mo Q, Decker M, Vonica A, Shen R, Brogi E, Brivanlou AH, Giancotti FG.
Cell. 2012 Aug 17;150(4):764-79. doi: 10.1016/j.cell.2012.06.035. Erratum in: Cell. 2012 Dec 7;151(6):1386-8.
PMID: 22901808
Arduini BL, Brivanlou AH.
Stem Cells. 2012 Oct;30(10):2188-98. doi: 10.1002/stem.1200.
PMID: 22887036
The molecular circuitry underlying pluripotency in embryonic stem cells.
Warmflash A, Arduini BL, Brivanlou AH.
Wiley Interdiscip Rev Syst Biol Med. 2012 Sep-Oct;4(5):443-56. doi: 10.1002/wsbm.1182. Epub 2012 Jul 3. Review.
PMID: 22761038
Warmflash A, Zhang Q, Sorre B, Vonica A, Siggia ED, Brivanlou AH.
Proc Natl Acad Sci U S A. 2012 Jul 10;109(28):E1947-56. doi: 10.1073/pnas.1207607109. Epub 2012 Jun 11.
PMID: 22689943
Hata A, Brivanlou AH.
Development. 2012 Feb;139(3):449-53. doi: 10.1242/dev.067249.
PMID: 22223676
Rosa A, Brivanlou AH.
EMBO J. 2011 Jan 19;30(2):237-48. doi: 10.1038/emboj.2010.319. Epub 2010 Dec 10.
PMID: 21151097
Synthetic mRNAs: powerful tools for reprogramming and differentiation of human cells.
Rosa A, Brivanlou AH.
Cell Stem Cell. 2010 Nov 5;7(5):549-50. doi: 10.1016/j.stem.2010.10.002.
PMID: 21040893
Vonica A, Rosa A, Arduini BL, Brivanlou AH.
Dev Biol. 2011 Feb 1;350(1):13-23. doi: 10.1016/j.ydbio.2010.09.016. Epub 2010 Sep 27.
PMID: 20880495
APCDD1 is a novel Wnt inhibitor mutated in hereditary hypotrichosis simplex.
Shimomura Y, Agalliu D, Vonica A, Luria V, Wajid M, Baumer A, Belli S, Petukhova L, Schinzel A, Brivanlou AH, Barres BA, Christiano AM.
Nature. 2010 Apr 15;464(7291):1043-7. doi: 10.1038/nature08875.
PMID: 20393562
MicroRNAs in early vertebrate development.
Rosa A, Brivanlou AH.
Cell Cycle. 2009 Nov 1;8(21):3513-20. Epub 2009 Nov 18. Review.
PMID: 19875943
Scaling of BMP gradients in Xenopus embryos.
Francois P, Vonica A, Brivanlou AH, Siggia ED.
Nature. 2009 Sep 3;461(7260):E1; discussion E2.
PMID: 19736667
Lacoste A, Berenshteyn F, Brivanlou AH.
Cell Stem Cell. 2009 Sep 4;5(3):332-42. doi: 10.1016/j.stem.2009.07.011. Erratum in: Cell Stem Cell. 2009 Nov 6;5(5):568.
PMID: 19733544
Bone morphogenetic protein 15 (BMP15) acts as a BMP and Wnt inhibitor during early embryogenesis.
Di Pasquale E, Brivanlou AH.
J Biol Chem. 2009 Sep 18;284(38):26127-36. doi: 10.1074/jbc.M109.036608. Epub 2009 Jun 24.
PMID: 19553676
Rosa A, Spagnoli FM, Brivanlou AH.
Dev Cell. 2009 Apr;16(4):517-27. doi: 10.1016/j.devcel.2009.02.007.
PMID: 19386261
GDF3 is a BMP inhibitor that can activate Nodal signaling only at very high doses.
Levine AJ, Levine ZJ, Brivanlou AH.
Dev Biol. 2009 Jan 1;325(1):43-8. doi: 10.1016/j.ydbio.2008.09.006. Epub 2008 Sep 18.
PMID: 18823971
Spagnoli FM, Brivanlou AH.
Development. 2008 Feb;135(3):451-61. Epub 2007 Dec 19.
PMID: 18094028
Signaling pathways in cancer and embryonic stem cells.
Dreesen O, Brivanlou AH.
Stem Cell Rev. 2007 Jan;3(1):7-17. Review.
PMID: 17873377
Proposal of a model of mammalian neural induction.
Levine AJ, Brivanlou AH.
Dev Biol. 2007 Aug 15;308(2):247-56. Epub 2007 Jun 2. Review.
PMID: 17585896
Balancing BMP signaling through integrated inputs into the Smad1 linker.
Sapkota G, Alarcón C, Spagnoli FM, Brivanlou AH, Massagué J.
Mol Cell. 2007 Feb 9;25(3):441-54.
PMID: 17289590
The left-right axis is regulated by the interplay of Coco, Xnr1 and derrière in Xenopus embryos.
Vonica A, Brivanlou AH.
Dev Biol. 2007 Mar 1;303(1):281-94. Epub 2006 Sep 28.
PMID: 17239842
A molecular basis for human embryonic stem cell pluripotency.
Noggle SA, James D, Brivanlou AH.
Stem Cell Rev. 2005;1(2):111-8. Review.
PMID: 17142845
Sapkota G, Knockaert M, Alarcón C, Montalvo E, Brivanlou AH, Massagué J.
J Biol Chem. 2006 Dec 29;281(52):40412-9. Epub 2006 Nov 2.
PMID: 17085434
Function of the two Xenopus smad4s in early frog development.
Chang C, Brivanlou AH, Harland RM.
J Biol Chem. 2006 Oct 13;281(41):30794-803. Epub 2006 Aug 14.
PMID: 16908518
Knockaert M, Sapkota G, Alarcón C, Massagué J, Brivanlou AH.
Proc Natl Acad Sci U S A. 2006 Aug 8;103(32):11940-5. Epub 2006 Aug 1.
PMID: 16882717
Sato N, Brivanlou AH.
Methods Mol Biol. 2006;331:267-83.
PMID: 16881522
Sato N, Brivanlou AH.
Methods Mol Biol. 2006;331:115-28.
PMID: 16881513
Contribution of human embryonic stem cells to mouse blastocysts.
James D, Noggle SA, Swigut T, Brivanlou AH.
Dev Biol. 2006 Jul 1;295(1):90-102.
PMID: 16769046
GDF3 at the crossroads of TGF-beta signaling.
Levine AJ, Brivanlou AH.
Cell Cycle. 2006 May;5(10):1069-73. Epub 2006 May 15. Review.
PMID: 16721050
The RNA-binding protein, Vg1RBP, is required for pancreatic fate specification.
Spagnoli FM, Brivanlou AH.
Dev Biol. 2006 Apr 15;292(2):442-56.
PMID: 16680827
Vonica A, Brivanlou AH.
Semin Cell Dev Biol. 2006 Feb;17(1):117-32. Epub 2006 Mar 3. Review.
PMID: 16516504
GDF3, a BMP inhibitor, regulates cell fate in stem cells and early embryos.
Levine AJ, Brivanlou AH.
Development. 2006 Jan;133(2):209-16. Epub 2005 Dec 8.
PMID: 16339188
XenDB: full length cDNA prediction and cross species mapping in Xenopus laevis.
Sczyrba A, Beckstette M, Brivanlou AH, Giegerich R, Altmann CR.
BMC Genomics. 2005 Sep 14;6:123.
PMID: 16162280
Wysocka J, Swigut T, Milne TA, Dou Y, Zhang X, Burlingame AL, Roeder RG, Brivanlou AH, Allis CD.
Cell. 2005 Jun 17;121(6):859-72.
PMID: 15960974
Muñoz-Sanjuán I, Brivanlou AH.
Mol Cell Biol. 2005 May;25(9):3608-19.
PMID: 15831466
A full menu for stem-cell research.
Spagnoli FM, Brivanlou AH.
Genome Biol. 2005;6(3):311. Epub 2005 Feb 25.
PMID: 15774038
DRAGON, a bone morphogenetic protein co-receptor.
Samad TA, Rebbapragada A, Bell E, Zhang Y, Sidis Y, Jeong SJ, Campagna JA, Perusini S, Fabrizio DA, Schneyer AL, Lin HY, Brivanlou AH, Attisano L, Woolf CJ.
J Biol Chem. 2005 Apr 8;280(14):14122-9. Epub 2005 Jan 25.
PMID: 15671031
Chamorro MN, Schwartz DR, Vonica A, Brivanlou AH, Cho KR, Varmus HE.
EMBO J. 2005 Jan 12;24(1):73-84. Epub 2004 Dec 9.
PMID: 15592430
Talikka M, Stefani G, Brivanlou AH, Zimmerman K.
Gene Expr Patterns. 2004 Sep;4(5):601-7.
PMID: 15261839
Lefty blocks a subset of TGFbeta signals by antagonizing EGF-CFC coreceptors.
Cheng SK, Olale F, Brivanlou AH, Schier AF.
PLoS Biol. 2004 Feb;2(2):E30. Epub 2004 Feb 17.
PMID: 14966532
Sato N, Meijer L, Skaltsounis L, Greengard P, Brivanlou AH.
Nat Med. 2004 Jan;10(1):55-63. Epub 2003 Dec 21.
PMID: 14702635
Molecular signature of human embryonic stem cells and its comparison with the mouse.
Sato N, Sanjuan IM, Heke M, Uchida M, Naef F, Brivanlou AH.
Dev Biol. 2003 Aug 15;260(2):404-13.
PMID: 12921741
Stem cells. Setting standards for human embryonic stem cells.
Brivanlou AH, Gage FH, Jaenisch R, Jessell T, Melton D, Rossant J.
Science. 2003 May 9;300(5621):913-6. No abstract available.
PMID: 12738841
Regulation of nodal and BMP signaling by tomoregulin-1 (X7365) through novel mechanisms.
Chang C, Eggen BJ, Weinstein DC, Brivanlou AH.
Dev Biol. 2003 Mar 1;255(1):1-11.
PMID: 12618130
Levine AJ, Munoz-Sanjuan I, Bell E, North AJ, Brivanlou AH.
Dev Biol. 2003 Feb 1;254(1):50-67.
PMID: 12606281
Cell fate specification and competence by Coco, a maternal BMP, TGFbeta and Wnt inhibitor.
Bell E, Muñoz-Sanjuán I, Altmann CR, Vonica A, Brivanlou AH.
Development. 2003 Apr;130(7):1381-9.
PMID: 12588853
EGF-CFC proteins are essential coreceptors for the TGF-beta signals Vg1 and GDF1.
Cheng SK, Olale F, Bennett JT, Brivanlou AH, Schier AF.
Genes Dev. 2003 Jan 1;17(1):31-6.
PMID: 12514096
In vivo imaging of quantum dots encapsulated in phospholipid micelles.
Dubertret B, Skourides P, Norris DJ, Noireaux V, Brivanlou AH, Libchaber A.
Science. 2002 Nov 29;298(5599):1759-62.
PMID: 12459582
Muñoz-Sanjuán I, Bell E, Altmann CR, Vonica A, Brivanlou AH.
Development. 2002 Dec;129(23):5529-40.
PMID: 12403722
Rho J, Altmann CR, Socci ND, Merkov L, Kim N, So H, Lee O, Takami M, Brivanlou AH, Choi Y.
DNA Cell Biol. 2002 Aug;21(8):541-9.
PMID: 12215257
Altmann CR, Chang C, Muñoz-Sanjuán I, Bell E, Heke M, Rifkin DB, Brivanlou AH.
Dev Biol. 2002 Aug 1;248(1):118-27.
PMID: 12142025
Neural induction, the default model and embryonic stem cells.
Muñoz-Sanjuán I, Brivanlou AH.
Nat Rev Neurosci. 2002 Apr;3(4):271-80. Review. No abstract available.
PMID: 11967557
Signal transduction and the control of gene expression.
Brivanlou AH, Darnell JE Jr.
Science. 2002 Feb 1;295(5556):813-8. Review.
PMID: 11823631
Zohn IE, Brivanlou AH.
Dev Biol. 2001 Nov 1;239(1):118-31.
PMID: 11784023
Reissmann E, Jörnvall H, Blokzijl A, Andersson O, Chang C, Minchiotti G, Persico MG, Ibáñez CF, Brivanlou AH.
Genes Dev. 2001 Aug 1;15(15):2010-22.
PMID: 11485994
Microarray-based analysis of early development in Xenopus laevis.
Altmann CR, Bell E, Sczyrba A, Pun J, Bekiranov S, Gaasterland T, Brivanlou AH.
Dev Biol. 2001 Aug 1;236(1):64-75.
PMID: 11456444
Twisted gastrulation can function as a BMP antagonist.
Chang C, Holtzman DA, Chau S, Chickering T, Woolf EA, Holmgren LM, Bodorova J, Gearing DP, Holmes WE, Brivanlou AH.
Nature. 2001 Mar 22;410(6827):483-7.
PMID: 11260717
Neural patterning in the vertebrate embryo.
Altmann CR, Brivanlou AH.
Int Rev Cytol. 2001;203:447-82. Review.
PMID: 11131523
Should the master regulator Rest in peace?
Brivanlou AH.
Nat Genet. 1998 Oct;20(2):109-10. No abstract available.
PMID: 9771697
Xenopus Smad7 inhibits both the activin and BMP pathways and acts as a neural inducer.
Casellas R, Brivanlou AH.
Dev Biol. 1998 Jun 1;198(1):1-12.
PMID: 9640328
Condie BG, Brivanlou AH, Harland RM.
Mol Cell Biol. 1990 Jul;10(7):3376-85.
PMID: 1972542
Brivanlou AH, Harland RM.
Development. 1989 Jul;106(3):611-7.
PMID: 2574664
Dr. Eric Siggia
Mapping cell migrations and fates in a gastruloid model to the human primitive streak.
Martyn I, Siggia ED, Brivanlou AH.
Development. 2019 Sep 12;146(17). pii: dev179564. doi: 10.1242/dev.179564.
PMID: 31427289
A 3D model of a human epiblast reveals BMP4-driven symmetry breaking.
Simunovic M, Metzger JJ, Etoc F, Yoney A, Ruzo A, Martyn I, Croft G, You DS, Brivanlou AH, Siggia ED.
Nat Cell Biol. 2019 Jul;21(7):900-910. doi: 10.1038/s41556-019-0349-7. Epub 2019 Jul 1.
PMID: 31263269
Self-organization of stem cells into embryos: A window on early mammalian development.
Shahbazi MN, Siggia ED, Zernicka-Goetz M.
Science. 2019 Jun 7;364(6444):948-951. doi: 10.1126/science.aax0164.
PMID: 31171690
Martyn I, Brivanlou AH, Siggia ED.
Development. 2019 Mar 25;146(6). pii: dev172791. doi: 10.1242/dev.172791.
PMID: 30814117
Author Correction: Self-organization of a human organizer by combined Wnt and Nodal signalling.
Martyn I, Kanno TY, Ruzo A, Siggia ED, Brivanlou AH.
Nature. 2018 Dec;564(7735):E10. doi: 10.1038/s41586-018-0583-3.
PMID: 30420607
WNT signaling memory is required for ACTIVIN to function as a morphogen in human gastruloids.
Yoney A, Etoc F, Ruzo A, Carroll T, Metzger JJ, Martyn I, Li S, Kirst C, Siggia ED, Brivanlou AH.
Elife. 2018 Oct 12;7. pii: e38279. doi: 10.7554/eLife.38279.
PMID: 30311909
Modeling Mammalian Gastrulation With Embryonic Stem Cells.
Siggia ED, Warmflash A.
Curr Top Dev Biol. 2018;129:1-23. doi: 10.1016/bs.ctdb.2018.03.001. Epub 2018 Apr 12. Review.
PMID: 29801527
Self-organization of a human organizer by combined Wnt and Nodal signalling.
Martyn I, Kanno TY, Ruzo A, Siggia ED, Brivanlou AH.
Nature. 2018 Jun;558(7708):132-135. doi: 10.1038/s41586-018-0150-y. Epub 2018 May 23. Erratum in: Nature. 2018 Dec;564(7735):E10.
PMID: 29795348
Morgani SM, Metzger JJ, Nichols J, Siggia ED, Hadjantonakis AK.
Elife. 2018 Feb 7;7. pii: e32839. doi: 10.7554/eLife.32839.
PMID: 29412136
Gene-free methodology for cell fate dynamics during development.
Corson F, Siggia ED.
Elife. 2017 Dec 13;6. pii: e30743. doi: 10.7554/eLife.30743.
PMID: 29235987
A Geometric Model of Stripe Refinement.
Siggia ED.
Dev Cell. 2017 May 8;41(3):225-227. doi: 10.1016/j.devcel.2017.04.016. Review.
PMID: 28486128
Long-Term High-Resolution Imaging of Developing C. elegans Larvae with Microfluidics.
Keil W, Kutscher LM, Shaham S, Siggia ED.
Dev Cell. 2017 Jan 23;40(2):202-214. doi: 10.1016/j.devcel.2016.11.022. Epub 2016 Dec 29.
PMID: 28041904
A Balance between Secreted Inhibitors and Edge Sensing Controls Gastruloid Self-Organization.
Etoc F, Metzger J, Ruzo A, Kirst C, Yoney A, Ozair MZ, Brivanlou AH, Siggia ED.
Dev Cell. 2016 Nov 7;39(3):302-315. doi: 10.1016/j.devcel.2016.09.016. Epub 2016 Oct 13.
PMID: 27746044
Predicting Ancestral Segmentation Phenotypes from Drosophila to Anopheles Using In Silico Evolution.
Rothschild JB, Tsimiklis P, Siggia ED, François P.
PLoS Genet. 2016 May 26;12(5):e1006052. doi: 10.1371/journal.pgen.1006052. eCollection 2016 May.
PMID: 27227405
Self-organization of the in vitro attached human embryo.
Deglincerti A, Croft GF, Pietila LN, Zernicka-Goetz M, Siggia ED, Brivanlou AH.
Nature. 2016 May 12;533(7602):251-4. doi: 10.1038/nature17948. Epub 2016 May 4.
PMID: 27144363
Temperature compensation and temperature sensation in the circadian clock.
Kidd PB, Young MW, Siggia ED.
Proc Natl Acad Sci U S A. 2015 Nov 17;112(46):E6284-92. doi: 10.1073/pnas.1511215112. Epub 2015 Nov 2.
PMID: 26578788
Warmflash A, Zhang Q, Brivanlou AH, Siggia ED.
Sci Signal. 2014 Sep 23;7(344):lc1. doi: 10.1126/scisignal.2005562.
PMID: 25249655
Encoding of temporal signals by the TGF-β pathway and implications for embryonic patterning.
Sorre B, Warmflash A, Brivanlou AH, Siggia ED.
Dev Cell. 2014 Aug 11;30(3):334-42. doi: 10.1016/j.devcel.2014.05.022. Epub 2014 Jul 24.
PMID: 25065773
A method to recapitulate early embryonic spatial patterning in human embryonic stem cells.
Warmflash A, Sorre B, Etoc F, Siggia ED, Brivanlou AH.
Nat Methods. 2014 Aug;11(8):847-54. doi: 10.1038/nmeth.3016. Epub 2014 Jun 29.
PMID: 24973948
Decisions on the fly in cellular sensory systems.
Siggia ED, Vergassola M.
Proc Natl Acad Sci U S A. 2013 Sep 24;110(39):E3704-12. doi: 10.1073/pnas.1314081110. Epub 2013 Sep 9.
PMID: 24019464
Phenotypic model for early T-cell activation displaying sensitivity, specificity, and antagonism.
François P, Voisinne G, Siggia ED, Altan-Bonnet G, Vergassola M.
Proc Natl Acad Sci U S A. 2013 Mar 5;110(10):E888-97. doi: 10.1073/pnas.1300752110. Epub 2013 Feb 19.
PMID: 23431198
Phenotypic models of evolution and development: geometry as destiny.
François P, Siggia ED.
Curr Opin Genet Dev. 2012 Dec;22(6):627-33. doi: 10.1016/j.gde.2012.09.001. Epub 2012 Sep 28.
PMID: 23026724
Signaling dynamics and embryonic development.
Warmflash A, Siggia ED, Brivanlou AH.
Cell Cycle. 2012 Oct 1;11(19):3529-30. doi: 10.4161/cc.21964. Epub 2012 Aug 30. No abstract available.
PMID: 22935712
Pareto evolution of gene networks: an algorithm to optimize multiple fitness objectives.
Warmflash A, Francois P, Siggia ED.
Phys Biol. 2012 Oct;9(5):056001. doi: 10.1088/1478-3975/9/5/056001. Epub 2012 Aug 8.
PMID: 22874123
Adaptive temperature compensation in circadian oscillations.
François P, Despierre N, Siggia ED.
PLoS Comput Biol. 2012;8(7):e1002585. doi: 10.1371/journal.pcbi.1002585. Epub 2012 Jul 12.
PMID: 22807663
Warmflash A, Zhang Q, Sorre B, Vonica A, Siggia ED, Brivanlou AH.
Proc Natl Acad Sci U S A. 2012 Jul 10;109(28):E1947-56. doi: 10.1073/pnas.1207607109. Epub 2012 Jun 11.
PMID: 22689943
Profile of Eric D. Siggia. Interview by Farooq Ahmed.
Siggia ED.
Proc Natl Acad Sci U S A. 2012 Apr 10;109(15):5551-2. doi: 10.1073/pnas.1204149109. Epub 2012 Apr 2. No abstract available.
PMID: 22474368
Geometry, epistasis, and developmental patterning.
Corson F, Siggia ED.
Proc Natl Acad Sci U S A. 2012 Apr 10;109(15):5568-75. doi: 10.1073/pnas.1201505109. Epub 2012 Mar 20.
PMID: 22434912
Predicting embryonic patterning using mutual entropy fitness and in silico evolution.
François P, Siggia ED.
Development. 2010 Jul;137(14):2385-95. doi: 10.1242/dev.048033.
PMID: 20570938
Bai L, Charvin G, Siggia ED, Cross FR.
Dev Cell. 2010 Apr 20;18(4):544-55. doi: 10.1016/j.devcel.2010.02.007.
PMID: 20412770
Origin of irreversibility of cell cycle start in budding yeast.
Charvin G, Oikonomou C, Siggia ED, Cross FR.
PLoS Biol. 2010 Jan 19;8(1):e1000284. doi: 10.1371/journal.pbio.1000284. Erratum in: PLoS Biol. 2011 Jul;9(7). doi:10.1371/annotation/90916531-1b34-4eb5-92a9-a7f8c5d72318.
PMID: 20087409
Scaling of BMP gradients in Xenopus embryos.
Francois P, Vonica A, Brivanlou AH, Siggia ED.
Nature. 2009 Sep 3;461(7260):E1; discussion E2.
PMID: 19736667
Using DNA mechanics to predict in vitro nucleosome positions and formation energies.
Morozov AV, Fortney K, Gaykalova DA, Studitsky VM, Widom J, Siggia ED.
Nucleic Acids Res. 2009 Aug;37(14):4707-22. doi: 10.1093/nar/gkp475. Epub 2009 Jun 9.
PMID: 19509309
Forced periodic expression of G1 cyclins phase-locks the budding yeast cell cycle.
Charvin G, Cross FR, Siggia ED.
Proc Natl Acad Sci U S A. 2009 Apr 21;106(16):6632-7. doi: 10.1073/pnas.0809227106. Epub 2009 Apr 3.
PMID: 19346485
Analysis of combinatorial cis-regulation in synthetic and genomic promoters.
Gertz J, Siggia ED, Cohen BA.
Nature. 2009 Jan 8;457(7226):215-8. doi: 10.1038/nature07521. Epub 2008 Nov 23.
PMID: 19029883
Developmental regulatory bits.
Siggia ED.
Mol Syst Biol. 2008;4:226. doi: 10.1038/msb.2008.64. Epub 2008 Nov 4. No abstract available.
PMID: 18985026
Positive feedback of G1 cyclins ensures coherent cell cycle entry.
Skotheim JM, Di Talia S, Siggia ED, Cross FR.
Nature. 2008 Jul 17;454(7202):291-6. doi: 10.1038/nature07118.
PMID: 18633409
A case study of evolutionary computation of biochemical adaptation.
François P, Siggia ED.
Phys Biol. 2008 Jun 24;5(2):026009. doi: 10.1088/1478-3975/5/2/026009.
PMID: 18577806
Sequence context affects the rate of short insertions and deletions in flies and primates.
Tanay A, Siggia ED.
Genome Biol. 2008;9(2):R37. doi: 10.1186/gb-2008-9-2-r37. Epub 2008 Feb 21.
PMID: 18291026
Charvin G, Cross FR, Siggia ED.
PLoS One. 2008 Jan 23;3(1):e1468. doi: 10.1371/journal.pone.0001468.
PMID: 18213377
Deriving structure from evolution: metazoan segmentation.
François P, Hakim V, Siggia ED.
Mol Syst Biol. 2007;3:154. Epub 2007 Dec 18.
PMID: 18091725
The effects of molecular noise and size control on variability in the budding yeast cell cycle.
Di Talia S, Skotheim JM, Bean JM, Siggia ED, Cross FR.
Nature. 2007 Aug 23;448(7156):947-51. Erratum in: Nature. 2007 Dec 20;450(7173):1272.
PMID: 17713537
Mwangi MM, Wu SW, Zhou Y, Sieradzki K, de Lencastre H, Richardson P, Bruce D, Rubin E, Myers E, Siggia ED, Tomasz A.
Proc Natl Acad Sci U S A. 2007 May 29;104(22):9451-6. Epub 2007 May 21.
PMID: 17517606
Connecting protein structure with predictions of regulatory sites.
Morozov AV, Siggia ED.
Proc Natl Acad Sci U S A. 2007 Apr 24;104(17):7068-73. Epub 2007 Apr 16.
PMID: 17438293
PhyloGibbs: a Gibbs sampling motif finder that incorporates phylogeny.
Siddharthan R, Siggia ED, van Nimwegen E.
PLoS Comput Biol. 2005 Dec;1(7):e67. Epub 2005 Dec 9.
PMID: 16477324
Gene expression from random libraries of yeast promoters.
Ligr M, Siddharthan R, Cross FR, Siggia ED.
Genetics. 2006 Apr;172(4):2113-22. Epub 2006 Jan 16.
PMID: 16415362
Coherence and timing of cell cycle start examined at single-cell resolution.
Bean JM, Siggia ED, Cross FR.
Mol Cell. 2006 Jan 6;21(1):3-14.
PMID: 16387649
Protein-DNA binding specificity predictions with structural models.
Morozov AV, Havranek JJ, Baker D, Siggia ED.
Nucleic Acids Res. 2005 Oct 24;33(18):5781-98. Print 2005.
PMID: 16246914
Cross FR, Siggia ED.
Phys Rev E Stat Nonlin Soft Matter Phys. 2005 Aug;72(2 Pt 1):021910. Epub 2005 Aug 24.
PMID: 16196607
Shake it, don’t break it: positive feedback and the evolution of oscillator design.
Cross FR, Siggia ED.
Dev Cell. 2005 Sep;9(3):309-10. Review.
PMID: 16139219
Bean JM, Siggia ED, Cross FR.
Genetics. 2005 Sep;171(1):49-61. Epub 2005 Jun 18.
PMID: 15965243
Cross-species comparison of Drosophila male accessory gland protein genes.
Mueller JL, Ravi Ram K, McGraw LA, Bloch Qazi MC, Siggia ED, Clark AG, Aquadro CF, Wolfner MF.
Genetics. 2005 Sep;171(1):131-43. Epub 2005 Jun 8.
PMID: 15944345
Computational methods for transcriptional regulation.
Siggia ED.
Curr Opin Genet Dev. 2005 Apr;15(2):214-21. Review.
PMID: 15797205
Sequence turnover and tandem repeats in cis-regulatory modules in drosophila.
Sinha S, Siggia ED.
Mol Biol Evol. 2005 Apr;22(4):874-85. Epub 2005 Jan 19.
PMID: 15659554
Sinha S, Schroeder MD, Unnerstall U, Gaul U, Siggia ED.
BMC Bioinformatics. 2004 Sep 9;5:129.
PMID: 15357878
Transcriptional control in the segmentation gene network of Drosophila.
Schroeder MD, Pearce M, Fak J, Fan H, Unnerstall U, Emberly E, Rajewsky N, Siggia ED, Gaul U.
PLoS Biol. 2004 Sep;2(9):E271. Epub 2004 Aug 31.
PMID: 15340490
Conservation of regulatory elements between two species of Drosophila.
Emberly E, Rajewsky N, Siggia ED.
BMC Bioinformatics. 2003 Nov 20;4:57.
PMID: 14629780
A probabilistic method to detect regulatory modules.
Sinha S, van Nimwegen E, Siggia ED.
Bioinformatics. 2003;19 Suppl 1:i292-301.
PMID: 12855472
Genome wide identification of regulatory motifs in Bacillus subtilis.
Mwangi MM, Siggia ED.
BMC Bioinformatics. 2003 May 16;4:18. Epub 2003 May 16.
PMID: 12749771
Rajewsky N, Vergassola M, Gaul U, Siggia ED.
BMC Bioinformatics. 2002 Oct 24;3:30. Epub 2002 Oct 24.
PMID: 12398796
Intrinsic and extrinsic contributions to stochasticity in gene expression.
Swain PS, Elowitz MB, Siggia ED.
Proc Natl Acad Sci U S A. 2002 Oct 1;99(20):12795-800. Epub 2002 Sep 17.
PMID: 12237400
Stochastic gene expression in a single cell.
Elowitz MB, Levine AJ, Siggia ED, Swain PS.
Science. 2002 Aug 16;297(5584):1183-6.
PMID: 12183631
Identification of the binding sites of regulatory proteins in bacterial genomes.
Li H, Rhodius V, Gross C, Siggia ED.
Proc Natl Acad Sci U S A. 2002 Sep 3;99(18):11772-7. Epub 2002 Aug 14.
PMID: 12181488
Probabilistic clustering of sequences: inferring new bacterial regulons by comparative genomics.
van Nimwegen E, Zavolan M, Rajewsky N, Siggia ED.
Proc Natl Acad Sci U S A. 2002 May 28;99(11):7323-8.
PMID: 12032281
The role of proofreading in signal transduction specificity.
Swain PS, Siggia ED.
Biophys J. 2002 Jun;82(6):2928-33.
PMID: 12023215
Dissection of COPI and Arf1 dynamics in vivo and role in Golgi membrane transport.
Presley JF, Ward TH, Pfeifer AC, Siggia ED, Phair RD, Lippincott-Schwartz J.
Nature. 2002 May 9;417(6885):187-93.
PMID: 12000962
The evolution of DNA regulatory regions for proteo-gamma bacteria by interspecies comparisons.
Rajewsky N, Socci ND, Zapotocky M, Siggia ED.
Genome Res. 2002 Feb;12(2):298-308.
PMID: 11827949
Regulatory element detection using correlation with expression.
Bussemaker HJ, Li H, Siggia ED.
Nat Genet. 2001 Feb;27(2):167-71.
PMID: 11175784
Diffusion in inhomogeneous media: theory and simulations applied to whole cell photobleach recovery.
Siggia ED, Lippincott-Schwartz J, Bekiranov S.
Biophys J. 2000 Oct;79(4):1761-70.
PMID: 11023884
Regulatory element detection using a probabilistic segmentation model.
Bussemaker HJ, Li H, Siggia ED.
Proc Int Conf Intell Syst Mol Biol. 2000;8:67-74.
PMID: 10977067
Bussemaker HJ, Li H, Siggia ED.
Proc Natl Acad Sci U S A. 2000 Aug 29;97(18):10096-100.
PMID: 10944202
Modeling RNA folding paths with pseudoknots: application to hepatitis delta virus ribozyme.
Isambert H, Siggia ED.
Proc Natl Acad Sci U S A. 2000 Jun 6;97(12):6515-20.
PMID: 10823910
Hirschberg K, Miller CM, Ellenberg J, Presley JF, Siggia ED, Phair RD, Lippincott-Schwartz J.
J Cell Biol. 1998 Dec 14;143(6):1485-503.
PMID: 9852146
Polymer models of meiotic and mitotic chromosomes.
Marko JF, Siggia ED.
Mol Biol Cell. 1997 Nov;8(11):2217-31.
PMID: 9362064
Driving proteins off DNA using applied tension.
Marko JF, Siggia ED.
Biophys J. 1997 Oct;73(4):2173-8.
PMID: 9336213
Ellenberg J, Siggia ED, Moreira JE, Smith CL, Presley JF, Worman HJ, Lippincott-Schwartz J.
J Cell Biol. 1997 Sep 22;138(6):1193-206.
PMID: 9298976
Electrostatics of lipid bilayer bending.
Chou T, Jarić MV, Siggia ED.
Biophys J. 1997 May;72(5):2042-55.
PMID: 9129807
Symmetry and Scaling of Turbulent Mixing.
Shraiman BI, Siggia ED.
Phys Rev Lett. 1996 Sep 16;77(12):2463-2466. No abstract available.
PMID: 10061960
Statistical mechanics of supercoiled DNA.
Marko JF, Siggia ED.
Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics. 1995 Sep;52(3):2912-2938. No abstract available.
PMID: 9963738
Entropic elasticity of lambda-phage DNA.
Bustamante C, Marko JF, Siggia ED, Smith S.
Science. 1994 Sep 9;265(5178):1599-600. No abstract available.
PMID: 8079175
Fluctuations and supercoiling of DNA.
Marko JF, Siggia ED.
Science. 1994 Jul 22;265(5171):506-8.
PMID: 8036491
Lagrangian path integrals and fluctuations in random flow.
Shraiman BI, Siggia ED.
Phys Rev E Stat Phys Plasmas Fluids Relat Interdiscip Topics. 1994 Apr;49(4):2912-2927. No abstract available.
PMID: 9961557
Excitation spectrum of the spiral state of a doped antiferromagnet.
Shraiman BI, Siggia ED.
Phys Rev B Condens Matter. 1992 Oct 1;46(13):8305-8311. No abstract available.
PMID: 10002592
Vortex morphology and Kelvin’s theorem.
Pumir A, Shraiman BI, Siggia ED.
Phys Rev A. 1992 Apr 15;45(8):R5351-R5354. No abstract available.
PMID: 9907727
Finite-time singularities in the axisymmetric three-dimension Euler equations.
Pumir A, Siggia ED.
Phys Rev Lett. 1992 Mar 9;68(10):1511-1514. No abstract available.
PMID: 10045150
Exponential tails and random advection.
Pumir A, Shraiman BI, Siggia ED.
Phys Rev Lett. 1991 Jun 10;66(23):2984-2987. No abstract available.
PMID: 10043669
Heat transport in high-Rayleigh-number convection.
Shraiman BI, Siggia ED.
Phys Rev A. 1990 Sep 15;42(6):3650-3653. No abstract available.
PMID: 9904456
Mobile vacancy in a quantum antiferromagnet: Effective Hamiltonian.
Shraiman BI, Siggia ED.
Phys Rev B Condens Matter. 1990 Aug 1;42(4):2485-2500. No abstract available.
PMID: 9995698
Ground state of a mobile vacancy in a quantum antiferromagnet: Small-cluster study.
Elser V V, Huse DA, Shraiman BI, Siggia ED.
Phys Rev B Condens Matter. 1990 Apr 1;41(10):6715-6723. No abstract available.
PMID: 9992924
Ground-state properties of a single oxygen hole in a CuO2 plane.
Frenkel DM, Gooding RJ, Shraiman BI, Siggia ED.
Phys Rev B Condens Matter. 1990 Jan 1;41(1):350-370. No abstract available.
PMID: 9992772
Spin-wave velocity and susceptibility for the two-dimensional Heisenberg antiferromagnet.
Gross M, Sánchez-Velasco E, Siggia ED.
Phys Rev B Condens Matter. 1989 Dec 1;40(16):11328-11330. No abstract available.
PMID: 9991708
Mean-field theory for vacancies in a quantum antiferromagnet.
Shraiman BI, Siggia ED.
Phys Rev B Condens Matter. 1989 Nov 1;40(13):9162-9166. No abstract available.
PMID: 9991405
Spiral phase of a doped quantum antiferromagnet.
Shraiman BI, Siggia ED.
Phys Rev Lett. 1989 Mar 27;62(13):1564-1567. No abstract available.
PMID: 10039706
Mobile vacancies in a quantum Heisenberg antiferromagnet.
Shraiman BI, Siggia ED.
Phys Rev Lett. 1988 Jul 25;61(4):467-470. No abstract available.
PMID: 10039340
Two-particle excitations in antiferromagnetic insulators.
Shraiman BI, Siggia ED.
Phys Rev Lett. 1988 Feb 22;60(8):740-743. No abstract available.
PMID: 10038634
Topological constraints on quasicrystal transformations.
Frenkel DM, Henley CL, Siggia ED.
Phys Rev B Condens Matter. 1986 Sep 15;34(6):3649-3669. No abstract available.
PMID: 9940128
Incipient singularities in the Navier-Stokes equations.
Siggia ED, Pumir A.
Phys Rev Lett. 1985 Oct 21;55(17):1749-1752. No abstract available.
PMID: 10031913
Dr. Fred Etoc
Haremaki T, Metzger JJ, Rito T, Ozair MZ, Etoc F, Brivanlou AH.
Nat Biotechnol. 2019 Oct;37(10):1198-1208. doi: 10.1038/s41587-019-0237-5. Epub 2019 Sep 9.
PMID: 31501559
A 3D model of a human epiblast reveals BMP4-driven symmetry breaking.
Simunovic M, Metzger JJ, Etoc F, Yoney A, Ruzo A, Martyn I, Croft G, You DS, Brivanlou AH, Siggia ED.
Nat Cell Biol. 2019 Jul;21(7):900-910. doi: 10.1038/s41556-019-0349-7. Epub 2019 Jul 1.
PMID: 31263269
A boost towards totipotency for stem cells.
Etoc F, Brivanlou A.
Nat Cell Biol. 2019 Jun;21(6):671-673. doi: 10.1038/s41556-019-0340-3. No abstract available.
PMID: 31160707
WNT signaling memory is required for ACTIVIN to function as a morphogen in human gastruloids.
Yoney A, Etoc F, Ruzo A, Carroll T, Metzger JJ, Martyn I, Li S, Kirst C, Siggia ED, Brivanlou AH.
Elife. 2018 Oct 12;7. pii: e38279. doi: 10.7554/eLife.38279.
PMID: 30311909
Etoc F, Balloul E, Vicario C, Normanno D, Liße D, Sittner A, Piehler J, Dahan M, Coppey M.
Nat Mater. 2018 Nov;17(11):1048. doi: 10.1038/s41563-018-0188-0.
PMID: 30232394
Non-specific interactions govern cytosolic diffusion of nanosized objects in mammalian cells.
Etoc F, Balloul E, Vicario C, Normanno D, Liße D, Sittner A, Piehler J, Dahan M, Coppey M.
Nat Mater. 2018 Aug;17(8):740-746. doi: 10.1038/s41563-018-0120-7. Epub 2018 Jul 2. Erratum in: Nat Mater. 2018 Nov;17(11):1048.
PMID: 29967464
A Balance between Secreted Inhibitors and Edge Sensing Controls Gastruloid Self-Organization.
Etoc F, Metzger J, Ruzo A, Kirst C, Yoney A, Ozair MZ, Brivanlou AH, Siggia ED.
Dev Cell. 2016 Nov 7;39(3):302-315. doi: 10.1016/j.devcel.2016.09.016. Epub 2016 Oct 13.
PMID: 27746044
Self-organization of human embryonic stem cells on micropatterns.
Deglincerti A, Etoc F, Guerra MC, Martyn I, Metzger J, Ruzo A, Simunovic M, Yoney A, Brivanlou AH, Siggia E, Warmflash A.
Nat Protoc. 2016 Nov;11(11):2223-2232. doi: 10.1038/nprot.2016.131. Epub 2016 Oct 13.
PMID: 27735934
Self-Organization of Spatial Patterning in Human Embryonic Stem Cells.
Deglincerti A, Etoc F, Ozair MZ, Brivanlou AH.
Curr Top Dev Biol. 2016;116:99-113. doi: 10.1016/bs.ctdb.2015.11.010. Epub 2016 Feb 2. Review.
PMID: 26970615
Predictive Spatiotemporal Manipulation of Signaling Perturbations Using Optogenetics.
Valon L, Etoc F, Remorino A, di Pietro F, Morin X, Dahan M, Coppey M.
Biophys J. 2015 Nov 3;109(9):1785-97. doi: 10.1016/j.bpj.2015.08.042.
PMID: 26536256
Etoc F, Vicario C, Lisse D, Siaugue JM, Piehler J, Coppey M, Dahan M.
Nano Lett. 2015 May 13;15(5):3487-94. doi: 10.1021/acs.nanolett.5b00851. Epub 2015 Apr 28.
PMID: 25895433
Magneto-fluorescent core-shell supernanoparticles.
Chen O, Riedemann L, Etoc F, Herrmann H, Coppey M, Barch M, Farrar CT, Zhao J, Bruns OT, Wei H, Guo P, Cui J, Jensen R, Chen Y, Harris DK, Cordero JM, Wang Z, Jasanoff A, Fukumura D, Reimer R, Dahan M, Jain RK, Bawendi MG.
Nat Commun. 2014 Oct 9;5:5093. doi: 10.1038/ncomms6093.
PMID: 25298155
Dlg1 controls planar spindle orientation in the neuroepithelium through direct interaction with LGN.
Saadaoui M, Machicoane M, di Pietro F, Etoc F, Echard A, Morin X.
J Cell Biol. 2014 Sep 15;206(6):707-17. doi: 10.1083/jcb.201405060. Epub 2014 Sep 8.
PMID: 25202028
A method to recapitulate early embryonic spatial patterning in human embryonic stem cells.
Warmflash A, Sorre B, Etoc F, Siggia ED, Brivanlou AH.
Nat Methods. 2014 Aug;11(8):847-54. doi: 10.1038/nmeth.3016. Epub 2014 Jun 29.
PMID: 24973948
Subcellular control of Rac-GTPase signalling by magnetogenetic manipulation inside living cells.
Etoc F, Lisse D, Bellaiche Y, Piehler J, Coppey M, Dahan M.
Nat Nanotechnol. 2013 Mar;8(3):193-8. doi: 10.1038/nnano.2013.23. Epub 2013 Mar 3.
PMID: 23455985
Dr. Edwin Rosado-Olivieri
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Edwin A Rosado-Olivieri, Kendall Anderson, Jennifer H Kenty, Douglas A Melton
Nature communications 10 (1), 1-11
PMID:
-
Two Na+ sites control conformational change in a neurotransmitter transporter homolog
Sotiria Tavoulari, Eleonora Margheritis, Anu Nagarajan, David C DeWitt, Yuan-Wei Zhang, Edwin Rosado, Silvia Ravera, Elizabeth Rhoades, Lucy R Forrest, Gary Rudnick
Journal of Biological Chemistry 291 (3), 1456-1471 51 2016
PMID:
-
Identification of a LIF-responsive, replication-competent subpopulation of human β cells
EA Rosado-Olivieri, II Aigha, JH Kenty, DA Melton
Cell metabolism 31 (2), 327-338. e6 9 2020
PMID:
-
Synthetic by design: Exploiting tissue self-organization to explore early human embryology
EA Brivanlou, H Ali
Developmental Biology 4 2021
PMID:
-
Gastruloids gain muscle: somite formation in embryo-like structures
EA Rosado-Olivieri, AH Brivanlou
Cell stem cell 26 (4), 467-468 3 2020
PMID:
-
Edwin A Rosado-Olivieri, Gibram A Ramos-Ortiz, Josué Hernández-Pasos, Carlos A Díaz-Balzac, Edwin Vázquez-Rosa, Griselle Valentín-Tirado, Irving E Vega, José E García-Arrarás
Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular … 2 2017
PMID:
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Edwin Rosado-Olivieri, Brandon Razooky, Hans-Heinrich Hoffmann, Riccardo De Santis, Charles M Rice, Ali H Brivanlou
Available at SSRN 3773794 2021
PMID:
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Edwin A Rosado-Olivieri, Brandon Razooky, H-H Hoffmann, Riccardo De Santis, Charles M Rice, Ali H Brivanlou
bioRxiv 2021
PMID:
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In Vitro Modeling of Human β Cell Differentiation, Regeneration and Function
EA Rosado-Olivieri
PQDT-Global 2019PMID:
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The Role of Sodium Sites in LeuT Conformational Changes
Gary Rudnick, Sotiria Tavoulari, Yuan-Wei Zhang, David DeWitt, Anu Nagarajan, Edwin Rosado, Silvia Ravera, Anna-Elisabeth Kreuder, Lucy R Forrest, Elizabeth Rhoades
Biophysical Journal 106 (2), 228a-229aPMID:
Ali Brivanlou, Ph.D. / Talks and Presentations 2021
Boston Children’s Hospital/Harvard Medical School Neurobiology Seminar Series
“Synthetic by design: Exploiting tissue self-organization to explore early human embryology”
11/8/2021
Yale Stem Cell Center Retreat – Keynote Speech
“Self-Organization of Synthetic Human Embryos and Organs”
10/29/2021
Science Writers 2021 Conference
“Engineered Humans: Human-animal chimeras, Organoids, Embryos and the 14-day rule”
10/4/2021
Center for Stem Cell Biology Faculty Forum – MSKCC
Developmental Biology Program – Work in Progress Meeting
“Synthetic Lungs; New Tools: Opto-genetics; PGCs; Human Primate Models”
6/23/2021
Harvard Annual Bioethics Conference
Biotechnology and the Future of Medicine
“Chimeras for in vivo validation of human embryo models”
6/10/2021
Stowers Research Conferences: Developmental Cell Biology
“Self-Organization of Synthetic Human Embryos and Synthetic Organs”
4/23/2021
Sapienza University of Rome
“Self-organization of Spatial Patterns in Synthetic Human Embryonic Clones, Organs, and Consequences…”
2/26/2021
Kenyon College Seminar
“Self-organization of Spatial Patterns in Synthetic Human Embryonic Clones, Organs, and Consequences…”
2/22/2021
Stem Cell and Regenerative Biology Department at Harvard University Seminar
“Self-organization of synthetic human embryos, organs, and consequences”
2/12/2021