Preview

2020-12-11_ParaRNASeq
- .RData
  
  41.2 MB
- .Rhistory
  
  25.6 kB
- .ipynb_checkpoints
  - FilterAlign-checkpoint.ipynb
    
    72 Bytes
  - FilterAlign_KL-checkpoint.ipynb
    
    3.9 kB
- Export_For_GSEA.R
  
  633 Bytes
- Exports
  - NEGvCTRL .Fold2log.rnk
    
    321.7 kB
  - NEGvCTRL .SignP.rnk
    
    315.0 kB
  - PARAvCTRL .Fold2log.rnk
    
    373.0 kB
  - PARAvCTRL .SignP.rnk
    
    368.3 kB
  - PARAvsNEG .Fold2log.rnk
    
    376.9 kB
  - PARAvsNEG .SignP.rnk
    
    370.6 kB
  - AllGeneSum_Anno.xlsx
    
    5.1 MB
  - ClusterPlot.pdf
    
    4.3 kB
  - DF.CTRLvPA.csv
    
    2.3 MB
  - GSEA_Sumury.xlsx
    
    20.9 kB
  - GSEA_Sumury_HALLMARK.xlsx
    
    24.6 kB
  - Heatmap.pdf
    
    7.0 kB
  - NvC_Enrich.pdf
    
    6.2 kB
  - PvC_Enrich.pdf
    
    6.7 kB
  - PvN_Enrich.pdf
    
    6.1 kB
  - ~$AllGeneSum.xlsx
    
    165 Bytes
  - ~$AllGeneSum_Anno.xlsx
    
    165 Bytes
- FilterAlign_BT.ipynb
  
  3.9 kB
- FilterAlign_KL.ipynb
  
  2.4 kB
- GSEA_Ploting.R
  
  3.2 kB
- GSEA_Ploting2.R
  
  1.5 kB
- GSEA_Results
  - NEGvCTRL_KEGG.GseaPreranked.1617340477707
    - KEGG_ADHERENS_JUNCTION.html
      
      17.7 kB
    - KEGG_ADHERENS_JUNCTION.tsv
      
      7.9 kB
    - KEGG_ALZHEIMERS_DISEASE.html
      
      25.4 kB
    - KEGG_ALZHEIMERS_DISEASE.tsv
      
      12.0 kB
    - KEGG_ANTIGEN_PROCESSING_AND_PRESENTATION.html
      
      9.1 kB
    - KEGG_ANTIGEN_PROCESSING_AND_PRESENTATION.tsv
      
      3.6 kB
    - KEGG_ARACHIDONIC_ACID_METABOLISM.html
      
      7.7 kB
    - KEGG_ARACHIDONIC_ACID_METABOLISM.tsv
      
      2.9 kB
    - KEGG_AXON_GUIDANCE.html
      
      24.3 kB
    - KEGG_AXON_GUIDANCE.tsv
      
      11.0 kB
    - KEGG_CHRONIC_MYELOID_LEUKEMIA.html
      
      17.7 kB
    - KEGG_CHRONIC_MYELOID_LEUKEMIA.tsv
      
      8.1 kB
    - KEGG_CITRATE_CYCLE_TCA_CYCLE.html
      
      8.4 kB
    - KEGG_CITRATE_CYCLE_TCA_CYCLE.tsv
      
      3.4 kB
    - KEGG_ENDOMETRIAL_CANCER.html
      
      13.5 kB
    - KEGG_ENDOMETRIAL_CANCER.tsv
      
      5.9 kB
    - KEGG_ERBB_SIGNALING_PATHWAY.html
      
      19.2 kB
    - KEGG_ERBB_SIGNALING_PATHWAY.tsv
      
      8.8 kB
    - KEGG_FOCAL_ADHESION.html
      
      37.8 kB
    - KEGG_FOCAL_ADHESION.tsv
      
      18.0 kB
    - KEGG_GLIOMA.html
      
      14.1 kB
    - KEGG_GLIOMA.tsv
      
      6.3 kB
    - KEGG_GLUTATHIONE_METABOLISM.html
      
      9.9 kB
    - KEGG_GLUTATHIONE_METABOLISM.tsv
      
      4.0 kB
    - KEGG_GLYCOSYLPHOSPHATIDYLINOSITOL_GPI_ANCHOR_BIOSYNTHESIS.html
      
      8.8 kB
    - KEGG_GLYCOSYLPHOSPHATIDYLINOSITOL_GPI_ANCHOR_BIOSYNTHESIS.tsv
      
      3.7 kB
    - KEGG_GLYOXYLATE_AND_DICARBOXYLATE_METABOLISM.html
      
      5.9 kB
    - KEGG_GLYOXYLATE_AND_DICARBOXYLATE_METABOLISM.tsv
      
      2.0 kB
    - KEGG_HOMOLOGOUS_RECOMBINATION.html
      
      8.3 kB
    - KEGG_HOMOLOGOUS_RECOMBINATION.tsv
      
      3.1 kB
    - KEGG_HUNTINGTONS_DISEASE.html
      
      28.9 kB
    - KEGG_HUNTINGTONS_DISEASE.tsv
      
      13.7 kB
    - KEGG_INSULIN_SIGNALING_PATHWAY.html
      
      29.7 kB
    - KEGG_INSULIN_SIGNALING_PATHWAY.tsv
      
      14.4 kB
    - KEGG_MELANOMA.html
      
      14.0 kB
    - KEGG_MELANOMA.tsv
      
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    - KEGG_MTOR_SIGNALING_PATHWAY.html
      
      13.6 kB
    - KEGG_MTOR_SIGNALING_PATHWAY.tsv
      
      6.1 kB
    - KEGG_NEUROTROPHIN_SIGNALING_PATHWAY.html
      
      25.8 kB
    - KEGG_NEUROTROPHIN_SIGNALING_PATHWAY.tsv
      
      12.2 kB
    - KEGG_NON_SMALL_CELL_LUNG_CANCER.html
      
      12.6 kB
    - KEGG_NON_SMALL_CELL_LUNG_CANCER.tsv
      
      5.5 kB
    - KEGG_OXIDATIVE_PHOSPHORYLATION.html
      
      18.0 kB
    - KEGG_OXIDATIVE_PHOSPHORYLATION.tsv
      
      8.2 kB
    - KEGG_PANCREATIC_CANCER.html
      
      16.9 kB
    - KEGG_PANCREATIC_CANCER.tsv
      
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    - KEGG_PARKINSONS_DISEASE.html
      
      17.4 kB
    - KEGG_PARKINSONS_DISEASE.tsv
      
      7.8 kB
    - KEGG_PATHWAYS_IN_CANCER.html
      
      60.0 kB
    - KEGG_PATHWAYS_IN_CANCER.tsv
      
      29.3 kB
    - KEGG_PENTOSE_PHOSPHATE_PATHWAY.html
      
      6.6 kB
    - KEGG_PENTOSE_PHOSPHATE_PATHWAY.tsv
      
      2.3 kB
    - KEGG_PHOSPHATIDYLINOSITOL_SIGNALING_SYSTEM.html
      
      17.8 kB
    - KEGG_PHOSPHATIDYLINOSITOL_SIGNALING_SYSTEM.tsv
      
      8.1 kB
    - KEGG_PORPHYRIN_AND_CHLOROPHYLL_METABOLISM.html
      
      6.3 kB
    - KEGG_PORPHYRIN_AND_CHLOROPHYLL_METABOLISM.tsv
      
      2.1 kB
    - KEGG_PROGESTERONE_MEDIATED_OOCYTE_MATURATION.html
      
      18.2 kB
    - KEGG_PROGESTERONE_MEDIATED_OOCYTE_MATURATION.tsv
      
      8.3 kB
    - KEGG_PROSTATE_CANCER.html
      
      19.6 kB
    - KEGG_PROSTATE_CANCER.tsv
      
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    - KEGG_PROTEASOME.html
      
      11.5 kB
    - KEGG_PROTEASOME.tsv
      
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    - KEGG_PURINE_METABOLISM.html
      
      31.4 kB
    - KEGG_PURINE_METABOLISM.tsv
      
      15.1 kB
    - KEGG_PYRIMIDINE_METABOLISM.html
      
      20.8 kB
    - KEGG_PYRIMIDINE_METABOLISM.tsv
      
      9.5 kB
    - KEGG_RIBOSOME.html
      
      20.3 kB
    - KEGG_RIBOSOME.tsv
      
      8.5 kB
    - KEGG_RNA_POLYMERASE.html
      
      8.1 kB
    - KEGG_RNA_POLYMERASE.tsv
      
      3.1 kB
    - KEGG_SMALL_CELL_LUNG_CANCER.html
      
      18.3 kB
    - KEGG_SMALL_CELL_LUNG_CANCER.tsv
      
      8.3 kB
    - KEGG_SPLICEOSOME.html
      
      30.7 kB
    - KEGG_SPLICEOSOME.tsv
      
      14.7 kB
    - KEGG_TYROSINE_METABOLISM.html
      
      6.9 kB
    - KEGG_TYROSINE_METABOLISM.tsv
      
      2.5 kB
    - KEGG_T_CELL_RECEPTOR_SIGNALING_PATHWAY.html
      
      20.4 kB
    - KEGG_T_CELL_RECEPTOR_SIGNALING_PATHWAY.tsv
      
      9.4 kB
    - KEGG_WNT_SIGNALING_PATHWAY.html
      
      27.7 kB
    - KEGG_WNT_SIGNALING_PATHWAY.tsv
      
      13.1 kB
    - NEGvCTRL_KEGG.GseaPreranked.1617340477707.rpt
      
      858 Bytes
    - Symbol_to_probe_set_mapping_details.tsv
      
      186.4 kB
    - edb
      - NEGvCTRL_collapsed.rnk
        
        201.1 kB
      - gene_sets.gmt
        
        61.1 kB
      - results.edb
        
        1.3 MB
    - enplot_KEGG_ADHERENS_JUNCTION_53.png
      
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    - enplot_KEGG_ALZHEIMERS_DISEASE_11.png
      
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    - enplot_KEGG_ANTIGEN_PROCESSING_AND_PRESENTATION_27.png
      
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      31.1 kB
    - enplot_KEGG_AXON_GUIDANCE_77.png
      
      32.6 kB
    - enplot_KEGG_CHRONIC_MYELOID_LEUKEMIA_41.png
      
      31.9 kB
    - enplot_KEGG_CITRATE_CYCLE_TCA_CYCLE_29.png
      
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    - enplot_KEGG_ENDOMETRIAL_CANCER_69.png
      
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    - enplot_KEGG_ERBB_SIGNALING_PATHWAY_45.png
      
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    - enplot_KEGG_FOCAL_ADHESION_51.png
      
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    - enplot_KEGG_GLIOMA_59.png
      
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    - enplot_KEGG_GLUTATHIONE_METABOLISM_13.png
      
      31.0 kB
    - enplot_KEGG_GLYCOSYLPHOSPHATIDYLINOSITOL_GPI_ANCHOR_BIOSYNTHESIS_37.png
      
      31.5 kB
    - enplot_KEGG_GLYOXYLATE_AND_DICARBOXYLATE_METABOLISM_31.png
      
      30.3 kB
    - enplot_KEGG_HOMOLOGOUS_RECOMBINATION_19.png
      
      30.6 kB
    - enplot_KEGG_HUNTINGTONS_DISEASE_9.png
      
      31.3 kB
    - enplot_KEGG_INSULIN_SIGNALING_PATHWAY_67.png
      
      32.2 kB
    - enplot_KEGG_MELANOMA_43.png
      
      30.6 kB
    - enplot_KEGG_MTOR_SIGNALING_PATHWAY_61.png
      
      31.5 kB
    - enplot_KEGG_NEUROTROPHIN_SIGNALING_PATHWAY_71.png
      
      32.2 kB
    - enplot_KEGG_NON_SMALL_CELL_LUNG_CANCER_49.png
      
      31.1 kB
    - enplot_KEGG_OXIDATIVE_PHOSPHORYLATION_3.png
      
      31.4 kB
    - enplot_KEGG_PANCREATIC_CANCER_47.png
      
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    - enplot_KEGG_PARKINSONS_DISEASE_5.png
      
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    - enplot_KEGG_PATHWAYS_IN_CANCER_63.png
      
      32.6 kB
    - enplot_KEGG_PENTOSE_PHOSPHATE_PATHWAY_39.png
      
      30.3 kB
    - enplot_KEGG_PHOSPHATIDYLINOSITOL_SIGNALING_SYSTEM_79.png
      
      32.0 kB
    - enplot_KEGG_PORPHYRIN_AND_CHLOROPHYLL_METABOLISM_33.png
      
      30.7 kB
    - enplot_KEGG_PROGESTERONE_MEDIATED_OOCYTE_MATURATION_65.png
      
      31.7 kB
    - enplot_KEGG_PROSTATE_CANCER_75.png
      
      31.8 kB
    - enplot_KEGG_PROTEASOME_7.png
      
      30.7 kB
    - enplot_KEGG_PURINE_METABOLISM_35.png
      
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    - enplot_KEGG_PYRIMIDINE_METABOLISM_25.png
      
      32.1 kB
    - enplot_KEGG_RIBOSOME_1.png
      
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    - enplot_KEGG_RNA_POLYMERASE_21.png
      
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    - enplot_KEGG_T_CELL_RECEPTOR_SIGNALING_PATHWAY_57.png
      
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    - gene_set_sizes.tsv
      
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      26.3 kB
    - gsea_report_for_na_neg_1617340477707.html
      
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    - gsea_report_for_na_neg_1617340477707.tsv
      
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    - gsea_report_for_na_pos_1617340477707.html
      
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    - gsea_report_for_na_pos_1617340477707.tsv
      
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    - index.html
      
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    - neg_snapshot.html
      
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    - pos_snapshot.html
      
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    - pvalues_vs_nes_plot.png
      
      43.3 kB
    - ranked_gene_list_na_pos_versus_na_neg_1617340477707.tsv
      
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      5.9 kB
  - PARAvCTRL_KEGG.GseaPreranked.1617340494426
    - KEGG_ADHERENS_JUNCTION.html
      
      18.2 kB
    - KEGG_ADHERENS_JUNCTION.tsv
      
      8.1 kB
    - KEGG_ALZHEIMERS_DISEASE.html
      
      26.3 kB
    - KEGG_ALZHEIMERS_DISEASE.tsv
      
      12.5 kB
    - KEGG_ARACHIDONIC_ACID_METABOLISM.html
      
      8.2 kB
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      3.1 kB
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      18.0 kB
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      13.8 kB
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      6.0 kB
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      20.2 kB
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      40.1 kB
    - KEGG_FOCAL_ADHESION.tsv
      
      19.0 kB
    - KEGG_GLIOMA.html
      
      15.0 kB
    - KEGG_GLIOMA.tsv
      
      6.7 kB
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      9.9 kB
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      4.1 kB
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      7.8 kB
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      5.6 kB
    - KEGG_GLYCOSAMINOGLYCAN_DEGRADATION.tsv
      
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    - KEGG_GLYCOSYLPHOSPHATIDYLINOSITOL_GPI_ANCHOR_BIOSYNTHESIS.html
      
      8.8 kB
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    - KEGG_NATURAL_KILLER_CELL_MEDIATED_CYTOTOXICITY.html
      
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      6.7 kB
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      2.4 kB
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    - KEGG_OOCYTE_MEIOSIS.html
      
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    - KEGG_PROTEIN_EXPORT.html
      
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    - KEGG_REGULATION_OF_ACTIN_CYTOSKELETON.html
      
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RNAseq Data and Analysis.zip