Weng, Zhiping

Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome

Heintzman, N. D., Stuart, R. K., Hon, G., Fu, Y., Ching, C. W., Hawkins, R. D., Barrera, L. O., Van Calcar, S., Qu, C., Ching, K. A., et al. (2007) · Nature Genetics

Genomics and Chromatin DynamicsEpigenetics and DNA Methylation

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The TREM2-APOE Pathway Drives the Transcriptional Phenotype of Dysfunctional Microglia in Neurodegenerative Diseases

Krasemann, S., Madore, C., Cialic, R., Baufeld, C., Calcagno, N., El Fatimy, R., Beckers, L., O’Loughlin, E., Xu, Y., Fanek, Z., et al. (2017) · Immunity

Neuroinflammation and Neurodegeneration MechanismsMultiple Sclerosis Research Studies

Cited by 2,979

Mapping genomic loci implicates genes and synaptic biology in schizophrenia

Trubetskoy, V., Pardiñas, A. F., Qi, T., Panagiotaropoulou, G., Awasthi, S., Bigdeli, T. B., Bryois, J., Chen, C.-Y., Dennison, C. A., Hall, L. S., et al. (2022) · Nature

Schizophrenia research and treatmentGenetic Associations and Epidemiology

Cited by 2,964

High-Resolution Mapping and Characterization of Open Chromatin across the Genome

Boyle, A. P., Davis, S., Shulha, H. P., Meltzer, P., Margulies, E. H., Weng, Z., Furey, T. S., & Crawford, G. E. (2008) · Cell

Genomics and Chromatin DynamicsChromatin Remodeling and Cancer

Cited by 1,415

ZDOCK: An initial‐stage protein‐docking algorithm

Chen, R., Li, L., & Weng, Z. (2003) · Proteins: Structure, Function, and Bioinformatics

Protein Structure and DynamicsComputational Drug Discovery Methods

Cited by 1,393

Assessing computational tools for the discovery of transcription factor binding sites

Tompa, M., Li, N., Bailey, T. L., Church, G. M., De Moor, B., Eskin, E., Favorov, A. V., Frith, M. C., Fu, Y., Kent, W. J., et al. (2005) · Nature Biotechnology

Genomics and Chromatin DynamicsGenomics and Phylogenetic Studies

Cited by 1,268

Transcriptome-wide isoform-level dysregulation in ASD, schizophrenia, and bipolar disorder

Gandal, M. J., Zhang, P., Hadjimichael, E., Walker, R. L., Chen, C., Liu, S., Won, H., van Bakel, H., Varghese, M., Wang, Y., et al. (2018) · Science

Autism Spectrum Disorder ResearchSchizophrenia research and treatment

Cited by 1,247

A Global Map of p53 Transcription-Factor Binding Sites in the Human Genome

Wei, C.-L., Wu, Q., Vega, V. B., Chiu, K. P., Ng, P., Zhang, T., Shahab, A., Yong, H. C., Fu, Y., Weng, Z., et al. (2006) · Cell

Genomics and Chromatin DynamicsCancer-related Molecular Pathways

Cited by 1,141

Therapeutic genome editing by combined viral and non-viral delivery of CRISPR system components in vivo

Yin, H., Song, C.-Q., Dorkin, J. R., Zhu, L. J., Li, Y., Wu, Q., Park, A., Yang, J., Suresh, S., Bizhanova, A., et al. (2016) · Nature Biotechnology

CRISPR and Genetic EngineeringVirus-based gene therapy research

Cited by 876

Integrative functional genomic analysis of human brain development and neuropsychiatric risks

Li, M., Santpere, G., Imamura Kawasawa, Y., Evgrafov, O. V., Gulden, F. O., Pochareddy, S., Sunkin, S. M., Li, Z., Shin, Y., Zhu, Y., et al. (2018) · Science

Genetics and Neurodevelopmental DisordersGenomics and Chromatin Dynamics

Cited by 810

Unexpected role of interferon-γ in regulating neuronal connectivity and social behaviour

Filiano, A. J., Xu, Y., Tustison, N. J., Marsh, R. L., Baker, W., Smirnov, I., Overall, C. C., Gadani, S. P., Turner, S. D., Weng, Z., et al. (2016) · Nature

Tryptophan and brain disordersNeuroinflammation and Neurodegeneration Mechanisms

Cited by 697

Endogenous siRNAs Derived from Transposons and mRNAs in Drosophila Somatic Cells

Ghildiyal, M., Seitz, H., Horwich, M. D., Li, C., Du, T., Lee, S., Xu, J., Kittler, E. L. W., Zapp, M. L., Weng, Z., et al. (2008) · Science

Chromosomal and Genetic VariationsRNA Interference and Gene Delivery

Cited by 645

Target RNA–Directed Trimming and Tailing of Small Silencing RNAs

Ameres, S. L., Horwich, M. D., Hung, J.-H., Xu, J., Ghildiyal, M., Weng, Z., & Zamore, P. D. (2010) · Science

RNA Interference and Gene DeliveryMicroRNA in disease regulation

Cited by 628

The PsychENCODE project

Akbarian, S., Liu, C., Knowles, J. A., Vaccarino, F. M., Farnham, P. J., Crawford, G. E., Jaffe, A. E., Pinto, D., Dracheva, S., Geschwind, D. H., et al. (2015) · Nature Neuroscience

Genomics and Chromatin DynamicsGenetic Associations and Epidemiology

Cited by 451

Updates to the integrated protein-protein interaction benchmarks: docking benchmark version 5 and affinity benchmark version 2

Vreven, T., Moal, I. H., Vangone, A., Pierce, B. G., Kastritis, P. L., Torchala, M., Chaleil, R., Jiménez-García, B., Bates, P. A., Fernandez-Recio, J., et al. (2015) · Journal of Molecular Biology

Protein Structure and DynamicsComputational Drug Discovery Methods

Cited by 424

Sorting of Drosophila small silencing RNAs partitions microRNA* strands into the RNA interference pathway

Ghildiyal, M., Xu, J., Seitz, H., Weng, Z., & Zamore, P. D. (2010) · RNA

RNA Interference and Gene DeliveryMicroRNA in disease regulation

Cited by 362

Adenovirus-Mediated Somatic Genome Editing of Pten by CRISPR/Cas9 in Mouse Liver in Spite of Cas9-Specific Immune Responses

Wang, D., Mou, H., Li, S., Li, Y., Hough, S., Tran, K., Li, J., Yin, H., Anderson, D. G., Sontheimer, E. J., et al. (2015) · Human Gene Therapy

CRISPR and Genetic EngineeringVirus-based gene therapy research

Cited by 345

Developmental regulation and individual differences of neuronal H3K4me3 epigenomes in the prefrontal cortex

Cheung, I., Shulha, H. P., Jiang, Y., Matevossian, A., Wang, J., Weng, Z., & Akbarian, S. (2010) · Proceedings of the National Academy of Sciences

Genomics and Chromatin DynamicsEpigenetics and DNA Methylation

Cited by 235

Identification of piRNA Binding Sites Reveals the Argonaute Regulatory Landscape of the C. elegans Germline

Shen, E.-Z., Chen, H., Ozturk, A. R., Tu, S., Shirayama, M., Tang, W., Ding, Y.-H., Dai, S.-Y., Weng, Z., & Mello, C. C. (2018) · Cell

Chromosomal and Genetic VariationsRNA Interference and Gene Delivery

Cited by 226

Neuron-specific signatures in the chromosomal connectome associated with schizophrenia risk

Rajarajan, P., Borrman, T., Liao, W., Schrode, N., Flaherty, E., Casiño, C., Powell, S., Yashaswini, C., LaMarca, E. A., Kassim, B., et al. (2018) · Science

Genomics and Chromatin DynamicsSchizophrenia research and treatment

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Integrating gene annotation with orthology inference at scale

Kirilenko, B. M., Munegowda, C., Osipova, E., Jebb, D., Sharma, V., Blumer, M., Morales, A. E., Ahmed, A.-W., Kontopoulos, D.-G., Hilgers, L., et al. (2023) · Science

Genomics and Phylogenetic StudiesChromosomal and Genetic Variations

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miR-10b-5p expression in Huntington’s disease brain relates to age of onset and the extent of striatal involvement

Hoss, A. G., Labadorf, A., Latourelle, J. C., Kartha, V. K., Hadzi, T. C., Gusella, J. F., MacDonald, M. E., Chen, J.-F., Akbarian, S., Weng, Z., et al. (2015) · BMC Medical Genomics

Genetic Neurodegenerative DiseasesMicroRNA in disease regulation

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Cell-specific histone modification maps in the human frontal lobe link schizophrenia risk to the neuronal epigenome

Girdhar, K., Hoffman, G. E., Jiang, Y., Brown, L., Kundakovic, M., Hauberg, M. E., Francoeur, N. J., Wang, Y.-C., Shah, H., Kavanagh, D. H., et al. (2018) · Nature Neuroscience

Genomics and Chromatin DynamicsSchizophrenia research and treatment

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Blind prediction of homo- and hetero-protein complexes: the CASP13-CAPRI experiment

Lensink, M. F., Brysbaert, G., Nadzirin, N., Velankar, S., Chaleil, R. A. G., Gerguri, T., Bates, P. A., Laine, E., Carbone, A., Grudinin, S., et al. (2019) · Proteins Structure Function and Bioinformatics

Protein Structure and DynamicsEnzyme Structure and Function

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