Yidong Chen

Search results

• RNA-Seq analysis of prostate tumors with or without androgen receptor splice variant

  Lu, C. (Contributor), Wang, H. (Contributor), Luber, B. (Contributor), Nakazawa, M. (Contributor), Chen, Y. (Contributor), Chen, Y. (Contributor), Zheng, Q. (Contributor), Nadal, R. (Contributor) & Luo, J. (Contributor), ArrayExpress, 2014

  https://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-56701

  Dataset

• Additional file 14 of Age-associated genes in human mammary gland drive human breast cancer progression

  Gu, X. (Creator), Wang, B. (Contributor), Zhu, H. (Contributor), Zhou, Y. (Creator), Horning, A. M. (Creator), Huang, T.H.-M. (Creator), Chen, Y. (Contributor), Houghton, P. (Creator), Lai, Z. (Creator), Michalek, J. E. (Creator) & Sun, L.-Z. (Creator), Figshare, 2020

  DOI: 10.6084/m9.figshare.12487352.v1, https://springernature.figshare.com/articles/Additional_file_14_of_Age-associated_genes_in_human_mammary_gland_drive_human_breast_cancer_progression/12487352/1

  Dataset

• Additional file 1: of GSAE: an autoencoder with embedded gene-set nodes for genomics functional characterization

  Chen, H.-I. H. (Contributor), Chiu, Y.-C. (Contributor), Zhang, T. (Contributor), Zhang, S. (Contributor), Huang, Y. (Contributor) & Chen, Y. (Contributor), Figshare, 2018

  DOI: 10.6084/m9.figshare.7502822, https://springernature.figshare.com/articles/Additional_file_1_of_GSAE_an_autoencoder_with_embedded_gene-set_nodes_for_genomics_functional_characterization/7502822

  Dataset

• Additional file 2: of CeL-ID: cell line identification using RNA-seq data

  Mohammad, T. A. (Contributor), Tsai, Y. S. (Creator), Ameer, S. (Contributor), Chen, H.-I. H. (Contributor), Chiu, Y.-C. (Contributor) & Chen, Y. (Contributor), Figshare, 2019

  DOI: 10.6084/m9.figshare.7666778.v1, https://springernature.figshare.com/articles/Additional_file_2_of_CeL-ID_cell_line_identification_using_RNA-seq_data/7666778/1

  Dataset

• microRNA-449a functions as a tumor suppressor in neuroblastoma through inducing cell differentiation and cell cycle arrest

  Zhao, Z. (Contributor), Ma, X. (Contributor), Sung, D. (Creator), Li, M. (Creator), Kosti, A. (Creator), Lin, G. (Creator), Chen, Y. (Contributor), Pertsemlidis, A. (Creator), Hsiao, T.-H. (Contributor) & Du, L. (Contributor), Taylor & Francis, 2015

  DOI: 10.6084/m9.figshare.1332512.v3, https://tandf.figshare.com/articles/dataset/microRNA_449a_functions_as_a_tumor_suppressor_in_neuroblastoma_through_inducing_cell_differentiation_and_cell_cycle_arrest/1332512/3

  Dataset

• MBDDiff: an R package designed specifically for processing MBDcap-seq datasets

  Liu, Y. (Contributor), Wilson, D. (Creator), Leach, R. J. (Creator) & Chen, Y. (Contributor), Figshare, 2016

  DOI: 10.6084/m9.figshare.c.3634943.v1, https://figshare.com/collections/MBDDiff_an_R_package_designed_specifically_for_processing_MBDcap-seq_datasets/3634943/1

  Dataset

• PARP1-MGMT complex underpins pathway crosstalk in O6-methylguanine repair

  Cropper, J. D. (Creator), Alimbetov, D. S. (Creator), Brown, K. T. G. (Creator), Likhotvorik, R. I. (Creator), Robles, A. J. (Creator), Guerra, J. T. (Creator), He, B. (Creator), Chen, Y. (Creator), Kwon, Y. (Creator) & Kurmasheva, R. T. (Creator), Figshare, 2022

  DOI: 10.6084/m9.figshare.c.6249616.v1, https://springernature.figshare.com/collections/PARP1-MGMT_complex_underpins_pathway_crosstalk_in_O6-methylguanine_repair/6249616/1

  Dataset

• Additional file 1: Figure S1. of A hierarchical model for clustering m6A methylation peaks in MeRIP-seq data

  Cui, X. (Contributor), Meng, J. (Creator), Zhang, S. (Contributor), Rao, M. K. (Creator), Chen, Y. (Contributor) & Huang, Y. (Contributor), Figshare, 2016

  DOI: 10.6084/m9.figshare.c.3645446_d3, https://springernature.figshare.com/articles/figure/Additional_file_1_Figure_S1_of_A_hierarchical_model_for_clustering_m6A_methylation_peaks_in_MeRIP-seq_data/4472081

  Dataset

• microRNA-449a functions as a tumor suppressor in neuroblastoma through inducing cell differentiation and cell cycle arrest

  Zhao, Z. (Contributor), Ma, X. (Contributor), Sung, D. (Creator), Li, M. (Creator), Kosti, A. (Creator), Lin, G. (Creator), Chen, Y. (Contributor), Pertsemlidis, A. (Creator), Hsiao, T.-H. (Contributor) & Du, L. (Contributor), Taylor & Francis, 2015

  DOI: 10.6084/m9.figshare.1332512.v2, https://tandf.figshare.com/articles/dataset/microRNA_449a_functions_as_a_tumor_suppressor_in_neuroblastoma_through_inducing_cell_differentiation_and_cell_cycle_arrest/1332512/2

  Dataset

• shinyDeepDR: a user-friendly R Shiny app for predicting anti-cancer drug response using deep learning

  Wang, L.-J. (Creator), Ning, M. (Creator), Nayak, T. (Creator), Kasper, M. J. (Contributor), Monga, S. P. (Creator), Huang, Y. (Creator), Chen, Y. (Creator) & Chiu, Y.-C. (Creator), Figshare, 2024

  DOI: 10.6084/m9.figshare.23925255, https://figshare.com/articles/software/_b_shinyDeepDR_a_user-friendly_R_Shiny_app_for_predicting_anti-cancer_drug_response_using_deep_learning_b_/23925255

  Dataset

• MOESM1 of An ancestry informative marker panel design for individual ancestry estimation of Hispanic population using whole exome sequencing data

  Wang, L.-J. (Creator), Zhang, C. W. (Creator), Su, S. C. (Creator), Chen, H.-I. H. (Contributor), Chiu, Y.-C. (Contributor), Lai, Z. (Creator), Bouamar, H. (Creator), Ramirez, A. G. (Creator), Cigarroa, F. G. (Creator), Sun, L.-Z. (Contributor) & Chen, Y. (Contributor), Figshare, 2019

  DOI: 10.6084/m9.figshare.11479419.v1, https://springernature.figshare.com/articles/MOESM1_of_An_ancestry_informative_marker_panel_design_for_individual_ancestry_estimation_of_Hispanic_population_using_whole_exome_sequencing_data/11479419/1

  Dataset

• Differential correlation analysis of glioblastoma reveals immune ceRNA interactions predictive of patient survival

  Chiu, Y.-C. (Contributor), Wang, L.-J. (Creator), Lu, T.-P. (Contributor), Hsiao, T.-H. (Contributor), Chuang, E. Y. (Creator) & Chen, Y. (Contributor), Figshare, 2017

  DOI: 10.6084/m9.figshare.c.3704557, https://figshare.com/collections/Differential_correlation_analysis_of_glioblastoma_reveals_immune_ceRNA_interactions_predictive_of_patient_survival/3704557

  Dataset

• MBDDiff: an R package designed specifically for processing MBDcap-seq datasets

  Liu, Y. (Contributor), Wilson, D. (Creator), Leach, R. J. (Creator) & Chen, Y. (Contributor), Figshare, 2016

  DOI: 10.6084/m9.figshare.c.3634943, https://figshare.com/collections/MBDDiff_an_R_package_designed_specifically_for_processing_MBDcap-seq_datasets/3634943

  Dataset

• microRNA-449a functions as a tumor suppressor in neuroblastoma through inducing cell differentiation and cell cycle arrest

  Zhao, Z. (Contributor), Pertsemlidis, A. (Creator), Du, L. (Contributor), Ma, X. (Contributor), Sung, D. (Creator), Li, M. (Creator), Kosti, A. (Creator), Lin, G. (Creator), Chen, Y. (Contributor) & Hsiao, T.-H. (Contributor), Taylor & Francis, 2015

  DOI: 10.6084/m9.figshare.1332512.v5, https://tandf.figshare.com/articles/dataset/microRNA_449a_functions_as_a_tumor_suppressor_in_neuroblastoma_through_inducing_cell_differentiation_and_cell_cycle_arrest/1332512/5

  Dataset

• SETDB1 interactions with PELP1 contributes to breast cancer endocrine therapy resistance

  Liu, Z. (Creator), Liu, J. (Creator), Ebrahimi, B. (Creator), Pratap, U. P. (Creator), He, Y. (Creator), Altwegg, K. A. (Creator), Tang, W. (Creator), Li, X. (Creator), Lai, Z. (Creator), Chen, Y. (Creator), Shen, L. (Creator), Sareddy, G. R. (Creator), Viswanadhapalli, S. (Creator), Tekmal, R. R. (Creator), Rao, M. K. (Creator) & Vadlamudi, R. K. (Creator), Figshare, 2022

  DOI: 10.6084/m9.figshare.c.5939816, https://springernature.figshare.com/collections/SETDB1_interactions_with_PELP1_contributes_to_breast_cancer_endocrine_therapy_resistance/5939816

  Dataset

• An ancestry informative marker panel design for individual ancestry estimation of Hispanic population using whole exome sequencing data

  Wang, L.-J. (Creator), Zhang, C. W. (Creator), Su, S. C. (Creator), Chen, H.-I. H. (Contributor), Chiu, Y.-C. (Contributor), Lai, Z. (Creator), Bouamar, H. (Creator), Ramirez, A. G. (Creator), Cigarroa, F. G. (Creator), Sun, L.-Z. (Contributor) & Chen, Y. (Contributor), Figshare, 2019

  DOI: 10.6084/m9.figshare.c.4801215, https://springernature.figshare.com/collections/An_ancestry_informative_marker_panel_design_for_individual_ancestry_estimation_of_Hispanic_population_using_whole_exome_sequencing_data/4801215

  Dataset

• Age-associated genes in human mammary gland drive human breast cancer progression

  Gu, X. (Creator), Wang, B. (Contributor), Zhu, H. (Contributor), Zhou, Y. (Creator), Horning, A. M. (Creator), Huang, T.H.-M. (Creator), Chen, Y. (Contributor), Houghton, P. (Creator), Lai, Z. (Creator), Michalek, J. E. (Creator) & Sun, L.-Z. (Creator), Figshare, 2020

  DOI: 10.6084/m9.figshare.c.5022674, https://springernature.figshare.com/collections/Age-associated_genes_in_human_mammary_gland_drive_human_breast_cancer_progression/5022674

  Dataset

• A hierarchical model for clustering m6A methylation peaks in MeRIP-seq data

  Cui, X. (Contributor), Meng, J. (Creator), Zhang, S. (Contributor), Rao, M. K. (Creator), Chen, Y. (Contributor) & Huang, Y. (Contributor), Figshare, 2016

  DOI: 10.6084/m9.figshare.c.3645446.v1, https://figshare.com/collections/A_hierarchical_model_for_clustering_m6A_methylation_peaks_in_MeRIP-seq_data/3645446/1

  Dataset

• A simple gene set-based method accurately predicts the synergy of drug pairs

  Hsu, Y.-C. (Contributor), Chiu, Y.-C. (Contributor), Chen, Y. (Contributor), Hsiao, T.-H. (Contributor) & Chuang, E. Y. (Creator), Figshare, 2016

  DOI: 10.6084/m9.figshare.c.3606356, https://figshare.com/collections/A_simple_gene_set-based_method_accurately_predicts_the_synergy_of_drug_pairs/3606356

  Dataset

• Astrocyte elevated gene-1 (AEG-1) and c-Myc cooperate to promote hepatocarcinogenesis

  Srivastava, J. (Contributor), Siddiq, A. (Contributor), Gredler, R. (Contributor), Rajasekaran, D. (Contributor), Garcia, D. (Contributor), Lai, Z. (Contributor), Chen, Y. (Contributor), Balaji, U. (Contributor) & Sarkar, D. (Contributor), ArrayExpress, 2014

  https://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-61875

  Dataset

• Androgen-Responsive microRNAs in mouse Sertoli Cells

  Panneerdoss, S. (Contributor), Shetty, G. (Contributor), Wang, H. (Contributor) & Chen, Y. (Contributor), ArrayExpress, 2012

  https://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-37679

  Dataset

• The Estrogen Receptor Co-Regulator Protein, Proline Glutamic Acid and Leucine Rich Protein 1 (PELP1) Mediates Estrogen Rapid Signaling and Neuroprotection in the Brain

  Zhang, Q. (Contributor), Wang, R. (Contributor), Scott, E. (Contributor), Zou, Y. (Contributor), Chen, Y. (Contributor), Dong, Y. (Contributor) & Brann, D. (Contributor), ArrayExpress, 2015

  https://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-72136

  Dataset

• Short-term rapamycin treatment in mice have few effects on the transcriptome of white adipose tissue compared to dietary restriction

  Livi, C. (Contributor), Bokov, A. (Contributor), Yu, Z. (Contributor), Chen, Y. (Contributor) & Richardson, A. (Contributor), ArrayExpress, 2014

  https://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-52825

  Dataset

• Imipramine Blue: A potent therapeutic regimen that suppresses breast cancer growth and metastasis

  Rajamanickam, S. (Contributor), Panneerdoss, S. (Contributor), Gorthi, A. (Contributor), Timilsina, S. (Contributor), Onyeagucha, B. (Contributor), Kovalskyy, D. (Contributor), Ivanov, D. (Contributor) & Chen, Y. (Contributor), ArrayExpress, 2016

  https://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-72363

  Dataset

• ChIP-seq analysis of PHF20 and Wdr5 binding sites in ESCs

  Zhao, W. (Contributor), Li, Q. (Contributor), Ayers, S. (Contributor), Gu, Y. (Contributor), Shi, Z. (Contributor), Zhu, Q. (Contributor) & Chen, Y. (Contributor), ArrayExpress, 2013

  https://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-43247

  Dataset