Yidong Chen

Search results

• Additional file 2: Figure S2. 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_d1.v1, https://springernature.figshare.com/articles/figure/Additional_file_2_Figure_S2_of_A_hierarchical_model_for_clustering_m6A_methylation_peaks_in_MeRIP-seq_data/4472075/1

  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 3: Figure S3. 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_d2.v1, https://springernature.figshare.com/articles/figure/Additional_file_3_Figure_S3_of_A_hierarchical_model_for_clustering_m6A_methylation_peaks_in_MeRIP-seq_data/4472078/1

  Dataset

• Transcription profiling by array of hematopoietic stem cells from mice heterozygous for CREB binding protein

  Day, C. (Contributor), Zhou, T. (Contributor), Zhou, Q. (Contributor), Suresh, U. (Contributor) & Chen, Y. (Contributor), ArrayExpress, 2012

  https://www.ebi.ac.uk/arrayexpress/experiments/E-GEOD-18061

  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

• Additional file 3: 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.7502834.v1, https://springernature.figshare.com/articles/Additional_file_3_of_GSAE_an_autoencoder_with_embedded_gene-set_nodes_for_genomics_functional_characterization/7502834/1

  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

• 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, 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

  Dataset

• XBSeq2: a fast and accurate quantification of differential expression and differential polyadenylation

  Liu, Y. (Creator), Wu, P. (Creator), Zhou, J. (Creator), Johnson-Pais, T. L. (Creator), Lai, Z. (Creator), Chowdhury, W. H. (Creator), Rodriguez, R. (Creator) & Chen, Y. (Creator), Figshare, 2017

  DOI: 10.6084/m9.figshare.c.3895993.v1, https://springernature.figshare.com/collections/XBSeq2_a_fast_and_accurate_quantification_of_differential_expression_and_differential_polyadenylation/3895993/1

  Dataset

• 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

• 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.v1, https://figshare.com/collections/A_simple_gene_set-based_method_accurately_predicts_the_synergy_of_drug_pairs/3606356/1

  Dataset

• DeepDEP: deep learning of a cancer dependency map using cancer genomics

  Chiu, Y.-C. (Creator), Huang, Y. (Creator), Chen, Y. (Creator) & Chen, Y. (Creator), Code Ocean, 2021

  DOI: 10.24433/co.3348251.v1, https://codeocean.com/capsule/7914207/tree/v1

  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

• MOESM3 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.11479428.v1, https://springernature.figshare.com/articles/MOESM3_of_An_ancestry_informative_marker_panel_design_for_individual_ancestry_estimation_of_Hispanic_population_using_whole_exome_sequencing_data/11479428/1

  Dataset

• Additional file 13 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.12487349, https://springernature.figshare.com/articles/Additional_file_13_of_Age-associated_genes_in_human_mammary_gland_drive_human_breast_cancer_progression/12487349

  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

• 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.v1, https://springernature.figshare.com/articles/Additional_file_1_of_GSAE_an_autoencoder_with_embedded_gene-set_nodes_for_genomics_functional_characterization/7502822/1

  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

• MOESM2 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.11479425, https://springernature.figshare.com/articles/MOESM2_of_An_ancestry_informative_marker_panel_design_for_individual_ancestry_estimation_of_Hispanic_population_using_whole_exome_sequencing_data/11479425

  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), 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

• 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, https://springernature.figshare.com/articles/Additional_file_14_of_Age-associated_genes_in_human_mammary_gland_drive_human_breast_cancer_progression/12487352

  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.v1, https://springernature.figshare.com/articles/figure/Additional_file_1_Figure_S1_of_A_hierarchical_model_for_clustering_m6A_methylation_peaks_in_MeRIP-seq_data/4472081/1

  Dataset

• Additional file 3: Figure S3. 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_d2, https://springernature.figshare.com/articles/figure/Additional_file_3_Figure_S3_of_A_hierarchical_model_for_clustering_m6A_methylation_peaks_in_MeRIP-seq_data/4472078

  Dataset