المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/journal_contribution/Some_supplementary_tables_and_figures_in_the_manuscript_/14550613

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.s001

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/figure/Evaluation_of_SSC_workflows_by_the_identification_of_important_genes_involved_in_cell_fate_decisions_/14550643

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.g006

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/dataset/The_interactions_between_combinatorial_drugs_and_targets_from_multiple_datasets_/14550616

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.s002

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/dataset/The_functional_genes_that_are_involved_in_human_embryonic_differentiation_/14550622

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.s004

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/figure/Overview_of_the_Sample-Specific_Control_problem_SSC_/14550628

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.g001

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/dataset/The_list_of_dark_genes_within_dark_gene_regions_from_a_canonical_dataset_/14550625

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.s005

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/figure/Evaluation_of_SSC_workflows_for_drug_target_identification_on_LUSC_and_LUAD_cancer_datasets_from_TCGA_/14550637

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.g004

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/figure/Evaluation_of_SSC_workflows_for_driver_gene_identification_on_nine_TCGA_bulk_cancer_gene_expression_datasets_/14550634

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.g003

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/dataset/The_drug_combinations_annotated_in_the_Clinical_Anti-cancer_Combinational_drugs_/14550619

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.s003

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/figure/Evaluation_of_SSC_workflows_by_key_genes_identification_on_Chu-time_single-cell_gene_expression_dataset_/14550640

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.g005

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/figure/The_evaluation_of_structural_network_control_methods_by_simulation_of_biological_networks_/14550631

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.g002

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/figure/The_i_P_i_-value_results_of_these_network_structure_factors_compared_with_random_selection_method_/14550661

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.g011

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/figure/Evaluation_of_identification_consensus_among_structural_control_methods_/14550652

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.g009

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/figure/Identification_of_dark_genes_by_different_SSC_workflows_on_Chu-time_single_cell_dataset_/14550646

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.g007

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/figure/Identification_of_dark-differential_expression_genes_by_different_SSC_workflows_on_multiple_TCGA_cancer_expression_datasets_/14550649

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.g008

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/dataset/The_summary_of_recommended_methods_in_different_biological_application_scenarios_/14550670

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.t001

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/figure/Evaluation_of_robustness_of_network_structural_control_methods_/14550658

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.g010

المؤلفون: Wei-Feng Guo (2901419), Xiangtian Yu (3513263), Qian-Qian Shi (4783386), Jing Liang (32441), Shao-Wu Zhang (2901425), Tao Zeng (103451)

مصطلحات موضوعية: Cell Biology, Genetics, Molecular Biology, Developmental Biology, Space Science, Biological Sciences not elsewhere classified, Information Systems not elsewhere classified, cancer bulk expression datasets, network-based control methods, 4 representative, Performance assessment, SSC analysis workflows, undirected network-based control me., sample-specific network control methods, Cell-Specific Network construction, driver genes prioritization, time point identification, sample-specific driver nodes, data analysis, simulation evaluation, sample-specific network constructio., TCGA, SSN, control methods, sample-specific networks, banchmarking workflows, network control methods, 16 SSC analysis workflows, up-stream sample-specific network m., 4 sample-specific network reconstru.

Relation: https://figshare.com/articles/figure/The_F-score_of_the_driver_nodes_enrichments_in_the_list_of_cancer-associated_genes_in_the_human_signaling_network_/14550667

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008962.g012