Karina L. Conkrite
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View article: Tables S10-S12 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors
Tables S10-S12 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors Open
Table S10: Statistics for input and output variables of lncMod analysis (xls file), Table S11: Significantly dysregulated lncMod triplets, Table S12: lncRNA TF associations ranked by # target genes
View article: Figure S6 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors
Figure S6 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors Open
Figure S6: Defining mesenchymal vs adrenergic lncRNAs in two NBL cohorts
View article: Figure S4 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors
Figure S4 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors Open
Figure S4: Structural variants impact lncRNAs in pediatric cancers
View article: Tables S15-S17 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors
Tables S15-S17 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors Open
Table S15: Data integration using multi-dimensional analysis to prioritize functional lncRNAs in each cancer, Table S16: Prioritized lncRNAs and predicted lncRNA target genes and pathways in NBL, Table S17: GSEA Analysis: MSigDB Hallmarks …
View article: Supplementary Information from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors
Supplementary Information from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors Open
Supplementary Methods, Index for Tables S1-S17, Index for Figures S1-S8
View article: Tables S1-S3 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors
Tables S1-S3 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors Open
Table S1: TARGET clinical sample and RNA-sequencing characteristics, Table S2: Genomic loci for lncRNA and protein coding genes in this study, Table S3: Number and types of genes expressed per cancer
View article: Tables S13-S14 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors
Tables S13-S14 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors Open
Table S13: lncRNAs associated with CRC of NBL, Table S14: Differentially expressed lncRNAs between major subtypes in NBL
View article: Figure S8 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors
Figure S8 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors Open
Figure S8: RNA expression profiling following TBX2-AS1 and TBX2 knockdown in NLF
View article: Figure S5 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors
Figure S5 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors Open
Figure S5: Characteristics of lncMod analysis and results
View article: Figure S2 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors
Figure S2 from Integrative Genomic Analyses Identify LncRNA Regulatory Networks across Pediatric Leukemias and Solid Tumors Open
Figure S2: lncRNA expression varies across pediatric cancers
View article: Protocol for plasma membrane enrichment by ultracentrifugation for mass spectrometry of cell lines, xenografts, and patient tumors
Protocol for plasma membrane enrichment by ultracentrifugation for mass spectrometry of cell lines, xenografts, and patient tumors Open
View article: ImmunoTar—integrative prioritization of cell surface targets for cancer immunotherapy
ImmunoTar—integrative prioritization of cell surface targets for cancer immunotherapy Open
Motivation Cancer remains a leading cause of mortality globally. Recent improvements in survival have been facilitated by the development of targeted and less toxic immunotherapies, such as chimeric antigen receptor (CAR)-T cells and antib…
View article: Figure S7 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Figure S7 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Figure S7: Validation of TBX2-AS1 expression in NBL cell lines and impact on NBL cell growth
View article: Figure S8 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Figure S8 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Figure S8: RNA expression profiling following TBX2-AS1 and TBX2 knockdown in NLF
View article: Figure S4 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Figure S4 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Figure S4: Structural variants impact lncRNAs in pediatric cancers
View article: Figure S4 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Figure S4 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Figure S4: Structural variants impact lncRNAs in pediatric cancers
View article: Figure S1 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Figure S1 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Figure S1: Workflow for RNA-seq gene mapping and quantification
View article: Supplementary Information from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Supplementary Information from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Supplementary Methods, Index for Tables S1-S17, Index for Figures S1-S8
View article: Tables S1-S3 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Tables S1-S3 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Table S1: TARGET clinical sample and RNA-sequencing characteristics, Table S2: Genomic loci for lncRNA and protein coding genes in this study, Table S3: Number and types of genes expressed per cancer
View article: Tables S4-S6 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Tables S4-S6 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Table S4: Top 10 expressed lncRNAs across TARGET cancers and GTEx tissues, Table S5: Tissue specificity index (tau score) annotation per gene, Table S6: Validation of tissue specific lncRNAs based on tau score analysis in alternate NBL dat…
View article: Figure S3 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Figure S3 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Figure S3: Regions of somatic copy number aberration across cancers and genes dysregulated due to copy number
View article: Figure S3 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Figure S3 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Figure S3: Regions of somatic copy number aberration across cancers and genes dysregulated due to copy number
View article: Tables S13-S14 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Tables S13-S14 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Table S13: lncRNAs associated with CRC of NBL, Table S14: Differentially expressed lncRNAs between major subtypes in NBL
View article: Tables S4-S6 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Tables S4-S6 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Table S4: Top 10 expressed lncRNAs across TARGET cancers and GTEx tissues, Table S5: Tissue specificity index (tau score) annotation per gene, Table S6: Validation of tissue specific lncRNAs based on tau score analysis in alternate NBL dat…
View article: Figure S2 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Figure S2 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Figure S2: lncRNA expression varies across pediatric cancers
View article: Figure S5 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Figure S5 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Figure S5: Characteristics of lncMod analysis and results
View article: Tables S15-S17 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Tables S15-S17 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Table S15: Data integration using multi-dimensional analysis to prioritize functional lncRNAs in each cancer, Table S16: Prioritized lncRNAs and predicted lncRNA target genes and pathways in NBL, Table S17: GSEA Analysis: MSigDB Hallmarks …
View article: Figure S7 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Figure S7 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Figure S7: Validation of TBX2-AS1 expression in NBL cell lines and impact on NBL cell growth
View article: Tables S10-S12 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Tables S10-S12 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Table S10: Statistics for input and output variables of lncMod analysis (xls file), Table S11: Significantly dysregulated lncMod triplets, Table S12: lncRNA TF associations ranked by # target genes
View article: Tables S7-S9 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors
Tables S7-S9 from Integrative genomic analyses identify lncRNA regulatory networks across pediatric leukemias and solid tumors Open
Table S7: Number of TARGET samples with WGS and SCNA events per cancer identified by GISTIC, Table S8: Differential expression of genes in samples with and without SCNA, Table S9: Number of samples with SVs in lncRNAs