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Julie Baker, Ph.D. - Publications

Affiliations: 
Genetics Stanford University, Palo Alto, CA 
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46 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Vondra S, Kunihs V, Eberhart T, Eigner K, Bauer R, Haslinger P, Haider S, Windsperger K, Klambauer G, Schütz B, Mikula M, Zhu X, Urban AE, Hannibal RL, Baker J, et al. Metabolism of cholesterol and progesterone is differentially regulated in primary trophoblastic subtypes and might be disturbed in recurrent miscarriages. Journal of Lipid Research. PMID 31530576 DOI: 10.1194/Jlr.P093427  0.326
2019 Cardoso-Moreira M, Halbert J, Valloton D, Velten B, Chen C, Shao Y, Liechti A, Ascenção K, Rummel C, Ovchinnikova S, Mazin PV, Xenarios I, Harshman K, Mort M, Cooper DN, ... ... Baker J, et al. Gene expression across mammalian organ development. Nature. PMID 31243369 DOI: 10.1038/S41586-019-1338-5  0.363
2018 Velicky P, Meinhardt G, Plessl K, Vondra S, Weiss T, Haslinger P, Lendl T, Aumayr K, Mairhofer M, Zhu X, Schütz B, Hannibal RL, Lindau R, Weil B, Ernerudh J, ... ... Baker J, et al. Genome amplification and cellular senescence are hallmarks of human placenta development. Plos Genetics. 14: e1007698. PMID 30312291 DOI: 10.1371/Journal.Pgen.1007698  0.387
2017 Guernsey MW, Chuong EB, Cornelis G, Renfree MB, Baker JC. Molecular conservation of marsupial and eutherian placentation and lactation. Elife. 6. PMID 28895534 DOI: 10.7554/Elife.27450  0.699
2017 Chang J, Baker J, Wills A. Transcriptional dynamics of tail regeneration in Xenopus tropicalis. Genesis (New York, N.Y. : 2000). PMID 28095651 DOI: 10.1002/Dvg.23015  0.786
2016 Zhu H, Behr B, Reddy VV, Hughes M, Pan Y, Baker J. Human Embryonic Stem Cell Lines with Lesions in FOXP3 and NF1. Plos One. 11: e0151836. PMID 26990425 DOI: 10.1371/Journal.Pone.0151836  0.311
2015 Yoon SJ, Foley JW, Baker JC. HEB associates with PRC2 and SMAD2/3 to regulate developmental fates. Nature Communications. 6: 6546. PMID 25775035 DOI: 10.1038/ncomms7546  0.385
2015 Wills AE, Baker JC. E2a is necessary for Smad2/3-dependent transcription and the direct repression of lefty during gastrulation. Developmental Cell. 32: 345-57. PMID 25669884 DOI: 10.1016/J.Devcel.2014.11.034  0.813
2014 Kwon T, Chung MI, Gupta R, Baker JC, Wallingford JB, Marcotte EM. Identifying direct targets of transcription factor Rfx2 that coordinate ciliogenesis and cell movement. Genomics Data. 2: 192-194. PMID 25419512 DOI: 10.1016/J.Gdata.2014.06.015  0.574
2014 Gupta R, Wills A, Ucar D, Baker J. Developmental enhancers are marked independently of zygotic Nodal signals in Xenopus. Developmental Biology. 395: 38-49. PMID 25205067 DOI: 10.1016/J.Ydbio.2014.08.034  0.803
2014 Hannibal RL, Chuong EB, Rivera-Mulia JC, Gilbert DM, Valouev A, Baker JC. Copy number variation is a fundamental aspect of the placental genome. Plos Genetics. 10: e1004290. PMID 24785991 DOI: 10.1371/Journal.Pgen.1004290  0.704
2014 Zhu H, Hu S, Baker J. JMJD5 regulates cell cycle and pluripotency in human embryonic stem cells. Stem Cells (Dayton, Ohio). 32: 2098-110. PMID 24740926 DOI: 10.1002/Stem.1724  0.305
2014 Chung MI, Kwon T, Tu F, Brooks ER, Gupta R, Meyer M, Baker JC, Marcotte EM, Wallingford JB. Coordinated genomic control of ciliogenesis and cell movement by RFX2. Elife. 3: e01439. PMID 24424412 DOI: 10.7554/Elife.01439  0.498
2014 Wills AE, Gupta R, Chuong E, Baker JC. Chromatin immunoprecipitation and deep sequencing in Xenopus tropicalis and Xenopus laevis. Methods (San Diego, Calif.). 66: 410-21. PMID 24064036 DOI: 10.1016/J.Ymeth.2013.09.010  0.764
2013 Chuong EB, Hannibal RL, Green SL, Baker JC. Evolutionary perspectives into placental biology and disease. Applied & Translational Genomics. 2: 64-69. PMID 27896057 DOI: 10.1016/J.Atg.2013.07.001  0.66
2013 Chuong EB, Rumi MA, Soares MJ, Baker JC. Endogenous retroviruses function as species-specific enhancer elements in the placenta. Nature Genetics. 45: 325-9. PMID 23396136 DOI: 10.1038/Ng.2553  0.712
2013 Tan MH, Au KF, Yablonovitch AL, Wills AE, Chuang J, Baker JC, Wong WH, Li JB. RNA sequencing reveals a diverse and dynamic repertoire of the Xenopus tropicalis transcriptome over development. Genome Research. 23: 201-16. PMID 22960373 DOI: 10.1101/Gr.141424.112  0.792
2013 Hannibal R, Chuong E, Rivera Mulia JC, Gilbert D, Valouev A, Baker J. Replication Timing Predicts Underreplicated Domains in Polyploid Trophoblast Giant Cells Placenta. 34: A8. DOI: 10.1016/J.Placenta.2013.06.029  0.711
2013 Chuong EB, Hannibal RL, Green SL, Baker JC. Evolutionary perspectives into placental biology and disease Applied and Translational Genomics. 2: 64-69. DOI: 10.1016/j.atg.2013.07.001  0.642
2012 Conklin JF, Baker J, Sage J. The RB family is required for the self-renewal and survival of human embryonic stem cells. Nature Communications. 3: 1244. PMID 23212373 DOI: 10.1038/Ncomms2254  0.32
2012 Oyolu C, Zakharia F, Baker J. Distinguishing human cell types based on housekeeping gene signatures. Stem Cells (Dayton, Ohio). 30: 580-4. PMID 22162332 DOI: 10.1002/Stem.1009  0.383
2011 Amps K, Andrews PW, Anyfantis G, Armstrong L, Avery S, Baharvand H, Baker J, Baker D, Munoz MB, Beil S, Benvenisty N, Ben-Yosef D, Biancotti JC, Bosman A, et al. Screening ethnically diverse human embryonic stem cells identifies a chromosome 20 minimal amplicon conferring growth advantage. Nature Biotechnology. 29: 1132-44. PMID 22119741 DOI: 10.1038/Nbt.2051  0.307
2011 Knox K, Leuenberger D, Penn AA, Baker JC. Global hormone profiling of murine placenta reveals Secretin expression. Placenta. 32: 811-6. PMID 21944867 DOI: 10.1016/j.placenta.2011.08.013  0.609
2011 Yoon SJ, Wills AE, Chuong E, Gupta R, Baker JC. HEB and E2A function as SMAD/FOXH1 cofactors. Genes & Development. 25: 1654-61. PMID 21828274 DOI: 10.1101/Gad.16800511  0.788
2011 Kim SW, Yoon SJ, Chuong E, Oyolu C, Wills AE, Gupta R, Baker J. Chromatin and transcriptional signatures for Nodal signaling during endoderm formation in hESCs. Developmental Biology. 357: 492-504. PMID 21741376 DOI: 10.1016/J.Ydbio.2011.06.009  0.802
2009 Wills AE, Dickinson K, Khokha MK, Baker JC, Harland RM. Interactions between Bmp and Nodal signaling regulate endoderm specification and patterning in Xenopus Developmental Biology. 331: 423. DOI: 10.1016/J.Ydbio.2009.05.131  0.755
2009 Baker J, Yoon SJ, Oyolu C, Chuong E, Kim SW. Dynamic binding of transcription factors and chromatin modifiers during endoderm formation in hESCs Developmental Biology. 331: 395. DOI: 10.1016/J.Ydbio.2009.05.043  0.705
2008 Wills A, Dickinson K, Khokha M, Baker JC. Bmp signaling is necessary and sufficient for ventrolateral endoderm specification in Xenopus. Developmental Dynamics : An Official Publication of the American Association of Anatomists. 237: 2177-86. PMID 18651654 DOI: 10.1002/Dvdy.21631  0.773
2008 Chiao E, Elazar M, Xing Y, Xiong A, Kmet M, Millan MT, Glenn JS, Wong WH, Baker J. Isolation and transcriptional profiling of purified hepatic cells derived from human embryonic stem cells. Stem Cells (Dayton, Ohio). 26: 2032-41. PMID 18535157 DOI: 10.1634/Stemcells.2007-0964  0.369
2008 Chiao E, Kmet M, Behr B, Baker J. Derivation of human embryonic stem cells in standard and chemically defined conditions. Methods in Cell Biology. 86: 1-14. PMID 18442641 DOI: 10.1016/S0091-679X(08)00001-0  0.308
2008 Knox K, Baker JC. Genomic evolution of the placenta using co-option and duplication and divergence. Genome Research. 18: 695-705. PMID 18340042 DOI: 10.1101/Gr.071407.107  0.631
2007 Mitiku N, Baker JC. Genomic analysis of gastrulation and organogenesis in the mouse. Developmental Cell. 13: 897-907. PMID 18061570 DOI: 10.1016/J.Devcel.2007.10.004  0.772
2007 Knox KS, Baker JC. Genome-wide expression profiling of placentas in the p57Kip2 model of pre-eclampsia. Molecular Human Reproduction. 13: 251-63. PMID 17289831 DOI: 10.1093/molehr/gal116  0.604
2006 Hufton AL, Vinayagam A, Suhai S, Baker JC. Genomic analysis of Xenopus organizer function. Bmc Developmental Biology. 6: 27. PMID 16756679 DOI: 10.1186/1471-213X-6-27  0.791
2006 Borchers A, Fonar Y, Frank D, Baker JC. XNF-ATc3 affects neural convergent extension. Development (Cambridge, England). 133: 1745-55. PMID 16571629 DOI: 10.1242/Dev.02343  0.646
2006 Fletcher RB, Baker JC, Harland RM. FGF8 spliceforms mediate early mesoderm and posterior neural tissue formation in Xenopus. Development (Cambridge, England). 133: 1703-14. PMID 16554360 DOI: 10.1242/Dev.02342  0.761
2006 Dickinson K, Leonard J, Baker JC. Genomic profiling of mixer and Sox17beta targets during Xenopus endoderm development. Developmental Dynamics : An Official Publication of the American Association of Anatomists. 235: 368-81. PMID 16278889 DOI: 10.1002/Dvdy.20636  0.767
2006 Kim SW, Hufton A, Wong W, Baker J. Genomic analysis of endoderm transcription in Xenopus Developmental Biology. 295: 391. DOI: 10.1016/J.Ydbio.2006.04.200  0.765
2005 Chiao E, Leonard J, Dickinson K, Baker JC. High-throughput functional screen of mouse gastrula cDNA libraries reveals new components of endoderm and mesoderm specification. Genome Research. 15: 44-53. PMID 15632089 DOI: 10.1101/Gr.2993405  0.728
2004 Myers AP, Corson LB, Rossant J, Baker JC. Characterization of mouse Rsk4 as an inhibitor of fibroblast growth factor-RAS-extracellular signal-regulated kinase signaling. Molecular and Cellular Biology. 24: 4255-66. PMID 15121846 DOI: 10.1128/Mcb.24.10.4255-4266.2004  0.309
2002 Borchers AG, Hufton AL, Eldridge AG, Jackson PK, Harland RM, Baker JC. The E3 ubiquitin ligase GREUL1 anteriorizes ectoderm during Xenopus development. Developmental Biology. 251: 395-408. PMID 12435366 DOI: 10.1006/Dbio.2002.0814  0.774
1999 Baker JC, Beddington RS, Harland RM. Wnt signaling in Xenopus embryos inhibits bmp4 expression and activates neural development. Genes & Development. 13: 3149-59. PMID 10601040 DOI: 10.1101/gad.13.23.3149  0.665
1999 Das P, Inoue H, Baker JC, Beppu H, Kawabata M, Harland RM, Miyazono K, Padgett RW. Drosophila dSmad2 and Atr-I transmit activin/TGFbeta signals. Genes to Cells : Devoted to Molecular & Cellular Mechanisms. 4: 123-34. PMID 10320478 DOI: 10.1046/J.1365-2443.1999.00244.X  0.667
1997 Baker JC, Harland RM. From receptor to nucleus: the Smad pathway. Current Opinion in Genetics & Development. 7: 467-73. PMID 9309176 DOI: 10.1016/S0959-437X(97)80072-X  0.583
1996 Baker JC, Harland RM. A novel mesoderm inducer, Madr2, functions in the activin signal transduction pathway. Genes & Development. 10: 1880-9. PMID 8756346  0.655
1996 Liu F, Hata A, Baker JC, Doody J, Cárcamo J, Harland RM, Massagué J. A human Mad protein acting as a BMP-regulated transcriptional activator. Nature. 381: 620-3. PMID 8637600 DOI: 10.1038/381620A0  0.65
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