Shiming Chen

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Mechanistically Distinct Mouse Models for CRX-Associated Retinopathy

N. Tran, J. Huecker, Alan Zhang, 2014, PLoS genetics.

Mutations in NR2E3 can cause dominant or recessive retinal degenerations in the same family

P. Gouras, N. Mermod, R. Allikmets, 2009, Human mutation.

Cytokine-Induced Activation of Signal Transducer and Activator of Transcription in Photoreceptor Precursors Regulates Rod Differentiation in the Developing Mouse Retina

O. Goureau, Shiming Chen, K. Rhee, 2004, The Journal of Neuroscience.

The photoreceptor-specific nuclear receptor Nr2e3 interacts with Crx and exerts opposing effects on the transcription of rod versus cone genes.

O. Ahmad, Shiming Chen, Jianfeng Liu, 2005, Human molecular genetics.

Photoreceptor degeneration changes magnetic resonance imaging features in a mouse model of retinitis pigmentosa

Sheng-Kwei Song, Qing Wang, Huiying Zhang, 2011, Magnetic resonance in medicine.

High-Throughput Analysis of Retinal Cis-Regulatory Networks by Massively Parallel Reporter Assays.

I. Oh, Shiming Chen, 2019, Advances in experimental medicine and biology.

Protein Phosphatase 1 binds strongly to the retinoblastoma protein but not to p107 or p130 in vitro and in vivo

D. Zack, C. Sung, N. Esumi, 2002, Current eye research.

Essential functions of MLL 1 and MLL 2 in retinal development and cone cell 1 maintenance 2 3 4 5

Xiaodong Zhang, Shiming Chen, Philip A Ruzycki, 2021 .

Essential Functions of MLL1 and MLL2 in Retinal Development and Cone Cell Maintenance

Xiaodong Zhang, Shiming Chen, Philip A Ruzycki, 2021, bioRxiv.

Fenofibrate Reduces the Severity of Neuroretinopathy in a Type 2 Model of Diabetes without Inducing Peroxisome Proliferator-Activated Receptor Alpha-Dependent Retinal Gene Expression

C. Semenkovich, R. Rajagopal, Xiaodong Zhang, 2020, Journal of clinical medicine.

Transcriptional Regulation of Neural Retina Leucine Zipper (Nrl), a Photoreceptor Cell Fate Determinant*

J. Corbo, N. Tran, K. Lawrence, 2011, The Journal of Biological Chemistry.

Xenopus Rhodopsin Promoter IDENTIFICATION OF IMMEDIATE UPSTREAM SEQUENCES NECESSARY FOR HIGH LEVEL, ROD-SPECIFIC TRANSCRIPTION*

Shiming Chen, G. Engbretson, B. Knox, 2001 .

Crx-L253X Mutation Produces Dominant Photoreceptor Defects in TVRM65 Mice

A. Hennig, Shiming Chen, Philip A Ruzycki, 2017, Investigative ophthalmology & visual science.

Crx-L 253 X mutation produces dominant photoreceptor defects in TVRM 65 mice

A. Hennig, Shiming Chen, Philip A Ruzycki, 2017 .

Mechanisms of blindness: Animal models provide insight into distinct CRX‐associated retinopathies

N. Tran, Shiming Chen, 2014, Developmental dynamics : an official publication of the American Association of Anatomists.

Mutations in the Cone-Rod Homeobox Gene Are Associated with the Cone-Rod Dystrophy Photoreceptor Degeneration

P. Sieving, D. Zack, S. Jacobson, 1997, Neuron.

Pias3-dependent SUMOylation controls mammalian cone photoreceptor differentiation

S. Blackshaw, Shiming Chen, A. Onishi, 2010, Nature Neuroscience.

Regulation of photoreceptor gene expression by Crx-associated transcription factor network

A. Hennig, Shiming Chen, Guang-Hua Peng, 2008, Brain Research.

Missense mutations in CRX homeodomain cause dominant retinopathies through two distinct mechanisms

Xiaodong Zhang, Shiming Chen, Philip A Ruzycki, 2023, bioRxiv.

Transcription coactivators p 300 and CBP are necessary for photoreceptor-specific chromatin organization and gene expression

A. Hennig, Shiming Chen, Guang-Hua Peng, 2019 .

CRX directs photoreceptor differentiation by accelerating chromatin remodeling at specific target sites

Xiaodong Zhang, Shiming Chen, Philip A Ruzycki, 2018, Epigenetics & Chromatin.

Nrl‐Cre transgenic mouse mediates loxP recombination in developing rod photoreceptors

D. Hodzic, D. Razafsky, Shiming Chen, 2016, Genesis.

The Transcription Factor GTF2IRD1 Regulates the Topology and Function of Photoreceptors by Modulating Photoreceptor Gene Expression across the Retina

S. Thorgeirsson, D. Zack, Jun Wan, 2014, The Journal of Neuroscience.

Transcription Coactivators p300 and CBP Are Necessary for Photoreceptor-Specific Chromatin Organization and Gene Expression

A. Hennig, Shiming Chen, Guang-Hua Peng, 2013, PloS one.

Active opsin loci adopt intrachromosomal loops that depend on the photoreceptor transcription factor network

Shiming Chen, Guang-Hua Peng, 2011, Proceedings of the National Academy of Sciences.

Epigenetic regulation of retinal development and disease

D. Chen, A. Hennig, Shiming Chen, 2011, Journal of ocular biology, diseases, and informatics.

Pias3-Dependent SUMOylation Directs Rod Photoreceptor Development

Seth Blackshaw, S. Blackshaw, Shiming Chen, 2009, Neuron.

Functional analysis of the rod photoreceptor cGMP phosphodiesterase alpha-subunit gene promoter: Nrl and Crx are required for full transcriptional activity.

D. Zack, Z. Ren, A. Swaroop, 2004, The Journal of biological chemistry.

The Leucine Zipper of NRL Interacts with the CRX Homeodomain

Siqun Xu, D. Zack, A. Swaroop, 2000, The Journal of Biological Chemistry.

Crx, a Novel Otx-like Paired-Homeodomain Protein, Binds to and Transactivates Photoreceptor Cell-Specific Genes

Donald J Zack, D. Zack, G. Lennon, 1997, Neuron.

CrxRdy Cat: A Large Animal Model for CRX-Associated Leber Congenital Amaurosis

N. Tran, K. Narfström, S. Petersen-Jones, 2016, Investigative ophthalmology & visual science.

Xenopus Rhodopsin Promoter

Shiming Chen, G. Engbretson, B. Knox, 2001, The Journal of Biological Chemistry.

Crx activates opsin transcription by recruiting HAT-containing co-activators and promoting histone acetylation.

Shiming Chen, Guang-Hua Peng, 2007, Human molecular genetics.

The orphan nuclear hormone receptor ERRβ controls rod photoreceptor survival

S. Blackshaw, E. M. Poth, Jichao Chen, 2010, Proceedings of the National Academy of Sciences.

De novo mutations in the CRX homeobox gene associated with Leber congenital amaurosis

V. Sheffield, D. Zack, S. Jacobson, 1998, Nature Genetics.

The Spalt family transcription factor Sall3 regulates the development of cone photoreceptors and retinal horizontal interneurons

S. Blackshaw, Shiming Chen, Guang-Hua Peng, 2011, Development.

MLL1 is essential for retinal neurogenesis and horizontal inner neuron integrity

Shiming Chen, Philip A Ruzycki, Diana S Brightman, 2018, Scientific Reports.

Interference of Crx-dependent transcription by ataxin-7 involves interaction between the glutamine regions and requires the ataxin-7 carboxy-terminal region for nuclear localization.

A. L. La Spada, B. Sopher, Shiming Chen, 2003, Human molecular genetics.

CHX10 Targets a Subset of Photoreceptor Genes*

Rod Bremner, D. Zack, R. Bremner, 2006, Journal of Biological Chemistry.

Chromatin immunoprecipitation identifies photoreceptor transcription factor targets in mouse models of retinal degeneration: New findings and challenges

Shiming Chen, Guang-Hua Peng, 2005, Visual Neuroscience.

Barrier to Autointegration Factor Interacts with the Cone-Rod Homeobox and Represses Its Transactivation Function*

Siqun Xu, A. Swaroop, C. Rivolta, 2002, The Journal of Biological Chemistry.

Retinal de novo lipogenesis coordinates neurotrophic signaling to maintain vision

Shenmin Zhang, F. Hsu, C. Semenkovich, 2018, JCI insight.

SCA7 Knockin Mice Model Human SCA7 and Reveal Gradual Accumulation of Mutant Ataxin-7 in Neurons and Abnormalities in Short-Term Plasticity

Edwin J. Weeber, Mark E. Pennesi, Huda Y. Zoghbi, 2003, Neuron.

Polyglutamine-expanded ataxin-7 inhibits STAGA histone acetyltransferase activity to produce retinal degeneration.

B. Chait, R. Roeder, A. Gamper, 2005, Proceedings of the National Academy of Sciences of the United States of America.

Sp4 Is Expressed in Retinal Neurons, Activates Transcription of Photoreceptor-specific Genes, and Synergizes with Crx*

L. Lerner, D. Farber, Shiming Chen, 2005, Journal of Biological Chemistry.

QRX, a novel homeobox gene, modulates photoreceptor gene expression.

D. Zack, S. Jacobson, A. Swaroop, 2004, Human molecular genetics.

FIZ1 is part of the regulatory protein complex on active photoreceptor-specific gene promoters in vivo

R. Mali, Shiming Chen, L. Dang, 2008, BMC Molecular Biology.

Ret 4, a Positive Acting Rhodopsin Regulatory Element Identified Using a Bovine Retina in Vitro Transcription System*

D. Zack, Shiming Chen, 1996, The Journal of Biological Chemistry.

Double chromatin immunoprecipitation: analysis of target co-occupancy of retinal transcription factors.

Shiming Chen, Guang-Hua Peng, 2013, Methods in molecular biology.

The bZIP Transcription Factor Nrl Stimulates Rhodopsin Promoter Activity in Primary Retinal Cell Cultures*

D. Zack, A. Swaroop, A. Rehemtulla, 1996, The Journal of Biological Chemistry.

Rho enhancers play unexpectedly minor roles in Rhodopsin transcription and rod cell integrity

Shiming Chen, Philip A Ruzycki, Chi Sun, 2022, bioRxiv.

Graded gene expression changes determine phenotype severity in mouse models of CRX-associated retinopathies

N. Tran, A. Kolesnikov, V. Kefalov, 2015, Genome Biology.

RER, an Evolutionarily Conserved Sequence Upstream of the Rhodopsin Gene, Has Enhancer Activity (*)

D. Zack, Z. Nie, Shiming Chen, 1996, The Journal of Biological Chemistry.

Missense mutations in CRX homeodomain cause dominant retinopathies through two distinct mechanisms

Xiaodong Zhang, Shiming Chen, Philip A Ruzycki, 2023, eLife.

Pathogenic variants in CRX have distinct cis-regulatory effects on enhancers and silencers in photoreceptors

B. Cohen, Michael A. White, I. Oh, 2023, bioRxiv.

Functional analysis of cone-rod homeobox (CRX) mutations associated with retinal dystrophy.

Siqun Xu, D. Zack, Qing-liang Wang, 2002, Human molecular genetics.

Disease-causing mutations in genes encoding transcription factors critical for photoreceptor development

Shiming Chen, Chi Sun, 2023, Frontiers in Molecular Neuroscience.

Missense mutations in CRX homeodomain cause dominant retinopathies through two distinct mechanisms

Xiaodong Zhang, Shiming Chen, Philip A Ruzycki, 2023, bioRxiv.

Cat LCA-CRX Model, Homozygous for an Antimorphic Mutation Has a Unique Phenotype

N. Tran, S. Petersen-Jones, Shiming Chen, 2023, bioRxiv.

MLL1 is essential for retinal neurogenesis and horizontal inner neuron integrity

A. Hennig, Shiming Chen, Philip A Ruzycki, 2018, Scientific Reports.

Revealing looping organization of mammalian photoreceptor genes using chromosome conformation capture (3C) assays.

Shiming Chen, Guang-Hua Peng, 2012, Methods in molecular biology.

Mutations in NR2E3 can cause dominant or recessive retinal degenerations in the same family

P. Gouras, N. Mermod, R. Allikmets, 2009, Human mutation.

Photoreceptor degeneration changes magnetic resonance imaging features in a mouse model of retinitis pigmentosa

Sheng-Kwei Song, Qing Wang, Huiying Zhang, 2011, Magnetic resonance in medicine.