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research areas: NF-E2-Related Factor 2
research areas: Antioxidant Response Elements
research areas: Drosophila Proteins
research areas: Transcription Factors
research areas: Drosophila melanogaster
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Ecology and Evolution
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Drosophila melanogaster
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number of authors: 118
number of publications: 632
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Authorship 112980
type: Authorship
author rank in publication: 5
linked author: Slattery, Matthew
linked information resource: A Role for Monomethylation of Histone H3-K27 in Gene Activity in Drosophila.

Authorship 116338
type: Authorship
author rank in publication: 3
linked author: Slattery, Matthew
linked information resource: The CARDIA dietary history: development, implementation, and evaluation.

Authorship 116757
type: Authorship
author rank in publication: 5
linked author: Slattery, Matthew
linked information resource: cis-regulatory architecture of a short-range EGFR organizing center in the Drosophila melanogaster leg.

Authorship 121148
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author rank in publication: 2
linked author: Slattery, Matthew
linked information resource: A study of the reliability and comparative validity of the cardia dietary history.

A study of the reliability and comparative validity of the cardia dietary history.
PubMed Identifier: 7742729
author list: Liu K, Slattery M, Jacobs D, Cutter G, McDonald A, Van Horn L, Hilner JE, Caan B, Bragg C, Dyer A
published in: Ethnicity & disease
information resource reference: A study of the reliability and comparative validity of the cardia dietary history. Ethn Dis. 1994; 4(1):15-27.
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cis-regulatory architecture of a short-range EGFR organizing center in the Drosophila melanogaster leg.
PubMed Identifier: 30142157
author list: Newcomb S, Voutev R, Jory A, Delker RK, Slattery M, Mann RS
published in: PLoS genetics
information resource reference: cis-regulatory architecture of a short-range EGFR organizing center in the Drosophila melanogaster leg. PLoS Genet. 2018 08; 14(8):e1007568.
journal title abbreviation: PLoS Genet
publication date: 2018-08-24T00:00:00
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type: Academic Article
type: Article
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The CARDIA dietary history: development, implementation, and evaluation.
PubMed Identifier: 1918764
author list: McDonald A, Van Horn L, Slattery M, Hilner J, Bragg C, Caan B, Jacobs D, Liu K, Hubert H, Gernhofer N, Betz E, Havlik D
published in: Journal of the American Dietetic Association
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A Role for Monomethylation of Histone H3-K27 in Gene Activity in Drosophila.
PubMed Identifier: 29242288
author list: Wang L, Joshi P, Miller EL, Higgins L, Slattery M, Simon JA
published in: Genetics
information resource reference: A Role for Monomethylation of Histone H3-K27 in Gene Activity in Drosophila. Genetics. 2018 03; 208(3):1023-1036.
journal title abbreviation: Genetics
publication date: 2017-12-14T00:00:00
year: 2017
type: Academic Article
type: Article
type: Document
type: Information Resource

Transcription Factors
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Authorship 135823
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linked information resource: The Drosophila MLR COMPASS complex is essential for programming cis-regulatory information and maintaining epigenetic memory during development.

The Drosophila MLR COMPASS complex is essential for programming cis-regulatory information and maintaining epigenetic memory during development.
PubMed Identifier: 32052053
author list: Zraly CB, Zakkar A, Perez JH, Ng J, White KP, Slattery M, Dingwall AK
published in: Nucleic acids research
information resource reference: The Drosophila MLR COMPASS complex is essential for programming cis-regulatory information and maintaining epigenetic memory during development. Nucleic Acids Res. 2020 04 17; 48(7):3476-3495.
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type: Academic Article
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type: Document
type: Information Resource

Authorship 48237
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linked information resource: Systematic evaluation of factors influencing ChIP-seq fidelity.

Authorship 39236
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linked information resource: Transcription factor choice in the Hippo signaling pathway: homothorax and yorkie regulation of the microRNA bantam in the progenitor domain of the Drosophila eye imaginal disc.

Authorship 44642
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linked information resource: Genome-wide tissue-specific occupancy of the Hox protein Ultrabithorax and Hox cofactor Homothorax in Drosophila.

Authorship 49432
type: Authorship
author rank in publication: 39
linked author: Slattery, Matthew
linked information resource: ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia.

Authorship 49579
type: Authorship
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linked information resource: Interpreting the regulatory genome: the genomics of transcription factor function in Drosophila melanogaster.

Authorship 49335
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linked information resource: Control of mitochondrial structure and function by the Yorkie/YAP oncogenic pathway.

Authorship 49665
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linked information resource: A survey of 6,300 genomic fragments for cis-regulatory activity in the imaginal discs of Drosophila melanogaster.

Ben May Department of Cancer Research
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Authorship 144822
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linked information resource: New regulators of Drosophila eye development identified from temporal transcriptome changes.

New regulators of Drosophila eye development identified from temporal transcriptome changes.
PubMed Identifier: 33681970
author list: Quiquand M, Rimesso G, Qiao N, Suo S, Zhao C, Slattery M, White KP, Han JJ, Baker NE
published in: Genetics
information resource reference: New regulators of Drosophila eye development identified from temporal transcriptome changes. Genetics. 2021 04 15; 217(4).
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Authorship 146133
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linked information resource: CrebA increases secretory capacity through direct transcriptional regulation of the secretory machinery, a subset of secretory cargo, and other key regulators.

CrebA increases secretory capacity through direct transcriptional regulation of the secretory machinery, a subset of secretory cargo, and other key regulators.
PubMed Identifier: 32613751
author list: Johnson DM, Wells MB, Fox R, Lee JS, Loganathan R, Levings D, Bastien A, Slattery M, Andrew DJ
published in: Traffic (Copenhagen, Denmark)
information resource reference: CrebA increases secretory capacity through direct transcriptional regulation of the secretory machinery, a subset of secretory cargo, and other key regulators. Traffic. 2020 09; 21(9):560-577.
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Genome-wide tissue-specific occupancy of the Hox protein Ultrabithorax and Hox cofactor Homothorax in Drosophila.
PubMed Identifier: 21483663
author list: Slattery M, Ma L, Négre N, White KP, Mann RS
published in: PloS one
information resource reference: Genome-wide tissue-specific occupancy of the Hox protein Ultrabithorax and Hox cofactor Homothorax in Drosophila. PLoS One. 2011 Apr 05; 6(4):e14686.
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type: Information Resource

Systematic evaluation of factors influencing ChIP-seq fidelity.
PubMed Identifier: 22522655
author list: Chen Y, Negre N, Li Q, Mieczkowska JO, Slattery M, Liu T, Zhang Y, Kim TK, He HH, Zieba J, Ruan Y, Bickel PJ, Myers RM, Wold BJ, White KP, Lieb JD, Liu XS
published in: Nature methods
information resource reference: Systematic evaluation of factors influencing ChIP-seq fidelity. Nat Methods. 2012 Jun; 9(6):609-14.
journal title abbreviation: Nat Methods
publication date: 2012-04-22T00:00:00
year: 2012
type: Academic Article
type: Article
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type: Information Resource

Interpreting the regulatory genome: the genomics of transcription factor function in Drosophila melanogaster.
PubMed Identifier: 23023663
author list: Slattery M, Nègre N, White KP
published in: Briefings in functional genomics
information resource reference: Interpreting the regulatory genome: the genomics of transcription factor function in Drosophila melanogaster. Brief Funct Genomics. 2012 Sep; 11(5):336-46.
journal title abbreviation: Brief Funct Genomics
publication date: 2012-09-01T00:00:00
year: 2012
type: Academic Article
type: Article
type: Document
type: Information Resource

Control of mitochondrial structure and function by the Yorkie/YAP oncogenic pathway.
PubMed Identifier: 22925885
author list: Nagaraj R, Gururaja-Rao S, Jones KT, Slattery M, Negre N, Braas D, Christofk H, White KP, Mann R, Banerjee U
published in: Genes & development
information resource reference: Control of mitochondrial structure and function by the Yorkie/YAP oncogenic pathway. Genes Dev. 2012 Sep 15; 26(18):2027-37.
journal title abbreviation: Genes Dev
publication date: 2012-08-27T00:00:00
year: 2012
type: Academic Article
type: Article
type: Document
type: Information Resource

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia.
PubMed Identifier: 22955991
author list: Landt SG, Marinov GK, Kundaje A, Kheradpour P, Pauli F, Batzoglou S, Bernstein BE, Bickel P, Brown JB, Cayting P, Chen Y, DeSalvo G, Epstein C, Fisher-Aylor KI, Euskirchen G, Gerstein M, Gertz J, Hartemink AJ, Hoffman MM, Iyer VR, Jung YL, Karmakar S, Kellis M, Kharchenko PV, Li Q, Liu T, Liu XS, Ma L, Milosavljevic A, Myers RM, Park PJ, Pazin MJ, Perry MD, Raha D, Reddy TE, Rozowsky J, Shoresh N, Sidow A, Slattery M, Stamatoyannopoulos JA, Tolstorukov MY, White KP, Xi S, Farnham PJ, Lieb JD, Wold BJ, Snyder M
published in: Genome research
information resource reference: ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia. Genome Res. 2012 Sep; 22(9):1813-31.
journal title abbreviation: Genome Res
publication date: 2012-09-01T00:00:00
year: 2012
type: Academic Article
type: Article
type: Document
type: Information Resource

Authorship 147784
type: Authorship
author rank in publication: 4
linked author: Slattery, Matthew
linked information resource: Transcriptional reprogramming by oxidative stress occurs within a predefined chromatin accessibility landscape.

Transcriptional reprogramming by oxidative stress occurs within a predefined chromatin accessibility landscape.
PubMed Identifier: 33992677
author list: Levings DC, Lacher SE, Palacios-Moreno J, Slattery M
published in: Free radical biology & medicine
information resource reference: Transcriptional reprogramming by oxidative stress occurs within a predefined chromatin accessibility landscape. Free Radic Biol Med. 2021 08 01; 171:319-331.
journal title abbreviation: Free Radic Biol Med
publication date: 2021-05-13T00:00:00
year: 2021
type: Academic Article
type: Article
type: Document
type: Information Resource

Transcription factor choice in the Hippo signaling pathway: homothorax and yorkie regulation of the microRNA bantam in the progenitor domain of the Drosophila eye imaginal disc.
PubMed Identifier: 19762509
author list: Peng HW, Slattery M, Mann RS
published in: Genes & development
information resource reference: Transcription factor choice in the Hippo signaling pathway: homothorax and yorkie regulation of the microRNA bantam in the progenitor domain of the Drosophila eye imaginal disc. Genes Dev. 2009 Oct 01; 23(19):2307-19.
journal title abbreviation: Genes Dev
publication date: 2009-09-17T00:00:00
year: 2009
type: Academic Article
type: Article
type: Document
type: Information Resource

A survey of 6,300 genomic fragments for cis-regulatory activity in the imaginal discs of Drosophila melanogaster.
PubMed Identifier: 23063361
author list: Jory A, Estella C, Giorgianni MW, Slattery M, Laverty TR, Rubin GM, Mann RS
published in: Cell reports
information resource reference: A survey of 6,300 genomic fragments for cis-regulatory activity in the imaginal discs of Drosophila melanogaster. Cell Rep. 2012 Oct 25; 2(4):1014-24.
journal title abbreviation: Cell Rep
publication date: 2012-10-12T00:00:00
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type: Academic Article
type: Article
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Drosophila Proteins
MeSH DescriptorUI: D029721
MeSH semantic group name: Chemicals & Drugs
number of authors: 95
number of publications: 523
uniqueness weight: 0.693323
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Authorship 153161
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linked information resource: Ribbon boosts ribosomal protein gene expression to coordinate organ form and function.

Ribbon boosts ribosomal protein gene expression to coordinate organ form and function.
PubMed Identifier: 35195669
author list: Loganathan R, Levings DC, Kim JH, Wells MB, Chiu H, Wu Y, Slattery M, Andrew DJ
published in: The Journal of cell biology
information resource reference: Ribbon boosts ribosomal protein gene expression to coordinate organ form and function. J Cell Biol. 2022 04 04; 221(4).
journal title abbreviation: J Cell Biol
publication date: 2022-02-23T00:00:00
year: 2022
type: Academic Article
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NF-E2-Related Factor 2
MeSH DescriptorUI: D051267
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number of authors: 35
number of publications: 51
uniqueness weight: 0.950932
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Transcription factor networks in Drosophila melanogaster.
PubMed Identifier: 25242320
author list: Rhee DY, Cho DY, Zhai B, Slattery M, Ma L, Mintseris J, Wong CY, White KP, Celniker SE, Przytycka TM, Gygi SP, Obar RA, Artavanis-Tsakonas S
published in: Cell reports
information resource reference: Transcription factor networks in Drosophila melanogaster. Cell Rep. 2014 Sep 25; 8(6):2031-2043.
journal title abbreviation: Cell Rep
publication date: 2014-09-18T00:00:00
year: 2014
type: Academic Article
type: Article
type: Document
type: Information Resource

Evolution of H3K27me3-marked chromatin is linked to gene expression evolution and to patterns of gene duplication and diversification.
PubMed Identifier: 24985914
author list: Arthur RK, Ma L, Slattery M, Spokony RF, Ostapenko A, Nègre N, White KP
published in: Genome research
information resource reference: Evolution of H3K27me3-marked chromatin is linked to gene expression evolution and to patterns of gene duplication and diversification. Genome Res. 2014 Jul; 24(7):1115-24.
journal title abbreviation: Genome Res
publication date: 2014-07-01T00:00:00
year: 2014
type: Academic Article
type: Article
type: Document
type: Information Resource

Recombinant antibodies to histone post-translational modifications.
PubMed Identifier: 23955773
author list: Hattori T, Taft JM, Swist KM, Luo H, Witt H, Slattery M, Koide A, Ruthenburg AJ, Krajewski K, Strahl BD, White KP, Farnham PJ, Zhao Y, Koide S
published in: Nature methods
information resource reference: Recombinant antibodies to histone post-translational modifications. Nat Methods. 2013 Oct; 10(10):992-5.
journal title abbreviation: Nat Methods
publication date: 2013-08-18T00:00:00
year: 2013
type: Academic Article
type: Article
type: Document
type: Information Resource

Comparative analysis of regulatory information and circuits across distant species.
PubMed Identifier: 25164757
author list: Boyle AP, Araya CL, Brdlik C, Cayting P, Cheng C, Cheng Y, Gardner K, Hillier LW, Janette J, Jiang L, Kasper D, Kawli T, Kheradpour P, Kundaje A, Li JJ, Ma L, Niu W, Rehm EJ, Rozowsky J, Slattery M, Spokony R, Terrell R, Vafeados D, Wang D, Weisdepp P, Wu YC, Xie D, Yan KK, Feingold EA, Good PJ, Pazin MJ, Huang H, Bickel PJ, Brenner SE, Reinke V, Waterston RH, Gerstein M, White KP, Kellis M, Snyder M
published in: Nature
information resource reference: Comparative analysis of regulatory information and circuits across distant species. Nature. 2014 Aug 28; 512(7515):453-6.
journal title abbreviation: Nature
publication date: 2014-08-28T00:00:00
year: 2014
type: Academic Article
type: Article
type: Document
type: Information Resource

Divergent transcriptional regulatory logic at the intersection of tissue growth and developmental patterning.
PubMed Identifier: 24039600
author list: Slattery M, Voutev R, Ma L, Nègre N, White KP, Mann RS
published in: PLoS genetics
information resource reference: Divergent transcriptional regulatory logic at the intersection of tissue growth and developmental patterning. PLoS Genet. 2013; 9(9):e1003753.
journal title abbreviation: PLoS Genet
publication date: 2013-09-05T00:00:00
year: 2013
type: Academic Article
type: Article
type: Document
type: Information Resource

Diverse patterns of genomic targeting by transcriptional regulators in Drosophila melanogaster.
PubMed Identifier: 24985916
author list: Slattery M, Ma L, Spokony RF, Arthur RK, Kheradpour P, Kundaje A, Nègre N, Crofts A, Ptashkin R, Zieba J, Ostapenko A, Suchy S, Victorsen A, Jameel N, Grundstad AJ, Gao W, Moran JR, Rehm EJ, Grossman RL, Kellis M, White KP
published in: Genome research
information resource reference: Diverse patterns of genomic targeting by transcriptional regulators in Drosophila melanogaster. Genome Res. 2014 Jul; 24(7):1224-35.
journal title abbreviation: Genome Res
publication date: 2014-07-01T00:00:00
year: 2014
type: Academic Article
type: Article
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type: Information Resource

Yorkie promotes transcription by recruiting a histone methyltransferase complex.
PubMed Identifier: 25017066
author list: Oh H, Slattery M, Ma L, White KP, Mann RS, Irvine KD
published in: Cell reports
information resource reference: Yorkie promotes transcription by recruiting a histone methyltransferase complex. Cell Rep. 2014 Jul 24; 8(2):449-59.
journal title abbreviation: Cell Rep
publication date: 2014-07-10T00:00:00
year: 2014
type: Academic Article
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type: Information Resource

He, Chuan
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Antioxidant Response Elements
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Regulatory Precision in Stress Responsive Transcriptional Networks
end date: 2021-05-31
grant awarded by: NIH
principal investigator name: SLATTERY, MATTHEW
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Indentification of Hox target genes controlling tissue growth
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linked information resource: Stb3 binds to ribosomal RNA processing element motifs that control transcriptional responses to growth in Saccharomyces cerevisiae.

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linked information resource: Evolution of H3K27me3-marked chromatin is linked to gene expression evolution and to patterns of gene duplication and diversification.

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SELEX-seq: a method for characterizing the complete repertoire of binding site preferences for transcription factor complexes.
PubMed Identifier: 25151169
author list: Riley TR, Slattery M, Abe N, Rastogi C, Liu D, Mann RS, Bussemaker HJ
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Cofactor binding evokes latent differences in DNA binding specificity between Hox proteins.
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Stb3 binds to ribosomal RNA processing element motifs that control transcriptional responses to growth in Saccharomyces cerevisiae.
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Deconvolving the recognition of DNA shape from sequence.
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Enhanced dissection of the regulatory genome.
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Disentangling the many layers of eukaryotic transcriptional regulation.
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A lexicon for homeodomain-DNA recognition.
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linked information resource: Establishment of a Developmental Compartment Requires Interactions between Three Synergistic Cis-regulatory Modules.

Establishment of a Developmental Compartment Requires Interactions between Three Synergistic Cis-regulatory Modules.
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author list: Bieli D, Kanca O, Requena D, Hamaratoglu F, Gohl D, Schedl P, Affolter M, Slattery M, Müller M, Estella C
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linked information resource: Ribbon regulates morphogenesis of the Drosophila embryonic salivary gland through transcriptional activation and repression.

Ribbon regulates morphogenesis of the Drosophila embryonic salivary gland through transcriptional activation and repression.
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linked information resource: Absence of a simple code: how transcription factors read the genome.

Absence of a simple code: how transcription factors read the genome.
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linked information resource: Beyond antioxidant genes in the ancient Nrf2 regulatory network.

Beyond antioxidant genes in the ancient Nrf2 regulatory network.
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DNA-binding sequence specificity of DUX4.
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A hypermorphic antioxidant response element is associated with increased MS4A6A expression and Alzheimer's disease.
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An antioxidant response element regulates the HIF1a axis in breast cancer cells.
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A distinct class of antioxidant response elements is consistently activated in tumors with NRF2 mutations.
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Limited Expression of Nrf2 in Neurons Across the Central Nervous System.
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A mouse model of wildfire smoke-induced health effects: sex differences in acute and sustained effects of inhalation exposures.
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Limited expression of Nrf2 in neurons across the central nervous system.
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The Glucocorticoid Receptor Inhibits NRF2-Mediated Expression of SLC7A11.
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An economical in vitro model of wood smoke exposure.
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Identification of a functional antioxidant response element at the HIF1A locus.
PubMed Identifier: 30241031
author list: Lacher SE, Levings DC, Freeman S, Slattery M
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Gene regulatory effects of disease-associated variation in the NRF2 network.
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Genome-wide association of Yorkie with chromatin and chromatin-remodeling complexes.
PubMed Identifier: 23395637
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linked information resource: A Polymorphic Antioxidant Response Element Links NRF2/sMAF Binding to Enhanced MAPT Expression and Reduced Risk of Parkinsonian Disorders.

A Polymorphic Antioxidant Response Element Links NRF2/sMAF Binding to Enhanced MAPT Expression and Reduced Risk of Parkinsonian Disorders.
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information resource reference: A Polymorphic Antioxidant Response Element Links NRF2/sMAF Binding to Enhanced MAPT Expression and Reduced Risk of Parkinsonian Disorders. Cell Rep. 2016 Apr 26; 15(4):830-842.
journal title abbreviation: Cell Rep
publication date: 2016-04-14T00:00:00
year: 2016
type: Academic Article
type: Article
type: Document
type: Information Resource