SRX2882864 GSM2649696 SRP108604 SRS2251286 GSM2649696 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649696 GSM2649696 GEO Accession GSM2649696 SRX2882865 GSM2649697 SRP108604 SRS2251287 GSM2649697 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649697 GSM2649697 GEO Accession GSM2649697 SRX2882866 GSM2649698 SRP108604 SRS2251288 GSM2649698 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649698 GSM2649698 GEO Accession GSM2649698 SRX2882867 GSM2649699 SRP108604 SRS2251289 GSM2649699 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649699 GSM2649699 GEO Accession GSM2649699 SRX2882868 GSM2649700 SRP108604 SRS2251290 GSM2649700 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649700 GSM2649700 GEO Accession GSM2649700 SRX2882869 GSM2649701 SRP108604 SRS2251291 GSM2649701 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649701 GSM2649701 GEO Accession GSM2649701 SRX2882870 GSM2649702 SRP108604 SRS2251292 GSM2649702 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649702 GSM2649702 GEO Accession GSM2649702 SRX2882871 GSM2649703 SRP108604 SRS2251293 GSM2649703 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649703 GSM2649703 GEO Accession GSM2649703 SRX2882872 GSM2649704 SRP108604 SRS2251294 GSM2649704 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649704 GSM2649704 GEO Accession GSM2649704 SRX2882873 GSM2649705 SRP108604 SRS2251295 GSM2649705 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649705 GSM2649705 GEO Accession GSM2649705 SRX2882874 GSM2649706 SRP108604 SRS2251296 GSM2649706 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649706 GSM2649706 GEO Accession GSM2649706 SRX2882875 GSM2649707 SRP108604 SRS2251297 GSM2649707 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649707 GSM2649707 GEO Accession GSM2649707 SRX2882876 GSM2649708 SRP108604 SRS2251298 GSM2649708 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649708 GSM2649708 GEO Accession GSM2649708 SRX2882877 GSM2649709 SRP108604 SRS2251299 GSM2649709 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649709 GSM2649709 GEO Accession GSM2649709 SRX2882878 GSM2649710 SRP108604 SRS2251300 GSM2649710 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649710 GSM2649710 GEO Accession GSM2649710 SRX2882879 GSM2649711 SRP108604 SRS2251301 GSM2649711 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649711 GSM2649711 GEO Accession GSM2649711 SRX2882880 GSM2649712 SRP108604 SRS2251302 GSM2649712 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649712 GSM2649712 GEO Accession GSM2649712 SRX2882881 GSM2649713 SRP108604 SRS2251303 GSM2649713 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649713 GSM2649713 GEO Accession GSM2649713 SRX2882882 GSM2649714 SRP108604 SRS2251304 GSM2649714 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649714 GSM2649714 GEO Accession GSM2649714 SRX2882883 GSM2649715 SRP108604 SRS2251305 GSM2649715 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649715 GSM2649715 GEO Accession GSM2649715 SRX2882884 GSM2649716 SRP108604 SRS2251306 GSM2649716 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649716 GSM2649716 GEO Accession GSM2649716 SRX2882885 GSM2649717 SRP108604 SRS2251307 GSM2649717 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649717 GSM2649717 GEO Accession GSM2649717 SRX2882886 GSM2649718 SRP108604 SRS2251308 GSM2649718 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649718 GSM2649718 GEO Accession GSM2649718 SRX2882887 GSM2649719 SRP108604 SRS2251309 GSM2649719 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649719 GSM2649719 GEO Accession GSM2649719 SRX2882888 GSM2649720 SRP108604 SRS2251310 GSM2649720 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649720 GSM2649720 GEO Accession GSM2649720 SRX2882889 GSM2649721 SRP108604 SRS2251311 GSM2649721 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649721 GSM2649721 GEO Accession GSM2649721 SRX2882890 GSM2649722 SRP108604 SRS2251312 GSM2649722 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649722 GSM2649722 GEO Accession GSM2649722 SRX2882891 GSM2649723 SRP108604 SRS2251313 GSM2649723 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649723 GSM2649723 GEO Accession GSM2649723 SRX2882892 GSM2649724 SRP108604 SRS2251314 GSM2649724 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649724 GSM2649724 GEO Accession GSM2649724 SRX2882893 GSM2649725 SRP108604 SRS2251315 GSM2649725 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649725 GSM2649725 GEO Accession GSM2649725 SRX2882894 GSM2649726 SRP108604 SRS2251316 GSM2649726 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649726 GSM2649726 GEO Accession GSM2649726 SRX2882895 GSM2649727 SRP108604 SRS2251317 GSM2649727 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649727 GSM2649727 GEO Accession GSM2649727 SRX2882896 GSM2649728 SRP108604 SRS2251318 GSM2649728 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649728 GSM2649728 GEO Accession GSM2649728 SRX2882897 GSM2649729 SRP108604 SRS2251319 GSM2649729 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649729 GSM2649729 GEO Accession GSM2649729 SRX2882898 GSM2649730 SRP108604 SRS2251320 GSM2649730 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649730 GSM2649730 GEO Accession GSM2649730 SRX2882899 GSM2649731 SRP108604 SRS2251321 GSM2649731 RNA-Seq TRANSCRIPTOMIC cDNA Bone samples (40-50 mg) were grinded with nitrogen by pestle and mortar into powder and pretreated with trizol. Total RNA was extracted with RNeasy Fibrous Tissue Mini Kit (Qiagen, Valencia CA, USA) according to the manufacturer’s protocol. 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302649731 GSM2649731 GEO Accession GSM2649731 SRX2894336 GSM2652426 SRP108604 SRS2261861 GSM2652426 RNA-Seq TRANSCRIPTOMIC cDNA For each FFPE sample, 6 pieces of 10 μm thick sections were used. RNA was extracted with PureLink FFPE Total RNA Isolation Kit from Invitrogen (Invitrogen Corporation, Carlsbad, CA, USA). For all samples (fresh and FFPE) osteosarcoma was confirmed samples by two independent pathologists 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302652426 GSM2652426 GEO Accession GSM2652426 SRX2894337 GSM2652427 SRP108604 SRS2261862 GSM2652427 RNA-Seq TRANSCRIPTOMIC cDNA For each FFPE sample, 6 pieces of 10 μm thick sections were used. RNA was extracted with PureLink FFPE Total RNA Isolation Kit from Invitrogen (Invitrogen Corporation, Carlsbad, CA, USA). For all samples (fresh and FFPE) osteosarcoma was confirmed samples by two independent pathologists 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302652427 GSM2652427 GEO Accession GSM2652427 SRX2894338 GSM2652428 SRP108604 SRS2261863 GSM2652428 RNA-Seq TRANSCRIPTOMIC cDNA For each FFPE sample, 6 pieces of 10 μm thick sections were used. RNA was extracted with PureLink FFPE Total RNA Isolation Kit from Invitrogen (Invitrogen Corporation, Carlsbad, CA, USA). For all samples (fresh and FFPE) osteosarcoma was confirmed samples by two independent pathologists 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302652428 GSM2652428 GEO Accession GSM2652428 SRX2894339 GSM2652429 SRP108604 SRS2261864 GSM2652429 RNA-Seq TRANSCRIPTOMIC cDNA For each FFPE sample, 6 pieces of 10 μm thick sections were used. RNA was extracted with PureLink FFPE Total RNA Isolation Kit from Invitrogen (Invitrogen Corporation, Carlsbad, CA, USA). For all samples (fresh and FFPE) osteosarcoma was confirmed samples by two independent pathologists 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302652429 GSM2652429 GEO Accession GSM2652429 SRX2894340 GSM2652430 SRP108604 SRS2261865 GSM2652430 RNA-Seq TRANSCRIPTOMIC cDNA For each FFPE sample, 6 pieces of 10 μm thick sections were used. RNA was extracted with PureLink FFPE Total RNA Isolation Kit from Invitrogen (Invitrogen Corporation, Carlsbad, CA, USA). For all samples (fresh and FFPE) osteosarcoma was confirmed samples by two independent pathologists 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302652430 GSM2652430 GEO Accession GSM2652430 SRX2894341 GSM2652431 SRP108604 SRS2261866 GSM2652431 RNA-Seq TRANSCRIPTOMIC cDNA For each FFPE sample, 6 pieces of 10 μm thick sections were used. RNA was extracted with PureLink FFPE Total RNA Isolation Kit from Invitrogen (Invitrogen Corporation, Carlsbad, CA, USA). For all samples (fresh and FFPE) osteosarcoma was confirmed samples by two independent pathologists 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302652431 GSM2652431 GEO Accession GSM2652431 SRX2894342 GSM2652432 SRP108604 SRS2261867 GSM2652432 RNA-Seq TRANSCRIPTOMIC cDNA For each FFPE sample, 6 pieces of 10 μm thick sections were used. RNA was extracted with PureLink FFPE Total RNA Isolation Kit from Invitrogen (Invitrogen Corporation, Carlsbad, CA, USA). For all samples (fresh and FFPE) osteosarcoma was confirmed samples by two independent pathologists 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302652432 GSM2652432 GEO Accession GSM2652432 SRX2894343 GSM2652433 SRP108604 SRS2261868 GSM2652433 RNA-Seq TRANSCRIPTOMIC cDNA For each FFPE sample, 6 pieces of 10 μm thick sections were used. RNA was extracted with PureLink FFPE Total RNA Isolation Kit from Invitrogen (Invitrogen Corporation, Carlsbad, CA, USA). For all samples (fresh and FFPE) osteosarcoma was confirmed samples by two independent pathologists 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302652433 GSM2652433 GEO Accession GSM2652433 SRX2894344 GSM2652434 SRP108604 SRS2261869 GSM2652434 RNA-Seq TRANSCRIPTOMIC cDNA For each FFPE sample, 6 pieces of 10 μm thick sections were used. RNA was extracted with PureLink FFPE Total RNA Isolation Kit from Invitrogen (Invitrogen Corporation, Carlsbad, CA, USA). For all samples (fresh and FFPE) osteosarcoma was confirmed samples by two independent pathologists 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302652434 GSM2652434 GEO Accession GSM2652434 SRX2894345 GSM2652435 SRP108604 SRS2261870 GSM2652435 RNA-Seq TRANSCRIPTOMIC cDNA For each FFPE sample, 6 pieces of 10 μm thick sections were used. RNA was extracted with PureLink FFPE Total RNA Isolation Kit from Invitrogen (Invitrogen Corporation, Carlsbad, CA, USA). For all samples (fresh and FFPE) osteosarcoma was confirmed samples by two independent pathologists 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302652435 GSM2652435 GEO Accession GSM2652435 SRX2894346 GSM2652436 SRP108604 SRS2261871 GSM2652436 RNA-Seq TRANSCRIPTOMIC cDNA For each FFPE sample, 6 pieces of 10 μm thick sections were used. RNA was extracted with PureLink FFPE Total RNA Isolation Kit from Invitrogen (Invitrogen Corporation, Carlsbad, CA, USA). For all samples (fresh and FFPE) osteosarcoma was confirmed samples by two independent pathologists 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302652436 GSM2652436 GEO Accession GSM2652436 SRX2894347 GSM2652437 SRP108604 SRS2261872 GSM2652437 RNA-Seq TRANSCRIPTOMIC cDNA For each FFPE sample, 6 pieces of 10 μm thick sections were used. RNA was extracted with PureLink FFPE Total RNA Isolation Kit from Invitrogen (Invitrogen Corporation, Carlsbad, CA, USA). For all samples (fresh and FFPE) osteosarcoma was confirmed samples by two independent pathologists 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302652437 GSM2652437 GEO Accession GSM2652437 SRX2894348 GSM2652438 SRP108604 SRS2261873 GSM2652438 RNA-Seq TRANSCRIPTOMIC cDNA For each FFPE sample, 6 pieces of 10 μm thick sections were used. RNA was extracted with PureLink FFPE Total RNA Isolation Kit from Invitrogen (Invitrogen Corporation, Carlsbad, CA, USA). For all samples (fresh and FFPE) osteosarcoma was confirmed samples by two independent pathologists 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302652438 GSM2652438 GEO Accession GSM2652438 SRX2894349 GSM2652439 SRP108604 SRS2261874 GSM2652439 RNA-Seq TRANSCRIPTOMIC cDNA For each FFPE sample, 6 pieces of 10 μm thick sections were used. RNA was extracted with PureLink FFPE Total RNA Isolation Kit from Invitrogen (Invitrogen Corporation, Carlsbad, CA, USA). For all samples (fresh and FFPE) osteosarcoma was confirmed samples by two independent pathologists 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302652439 GSM2652439 GEO Accession GSM2652439 SRX2894350 GSM2652440 SRP108604 SRS2261875 GSM2652440 RNA-Seq TRANSCRIPTOMIC cDNA For each FFPE sample, 6 pieces of 10 μm thick sections were used. RNA was extracted with PureLink FFPE Total RNA Isolation Kit from Invitrogen (Invitrogen Corporation, Carlsbad, CA, USA). For all samples (fresh and FFPE) osteosarcoma was confirmed samples by two independent pathologists 50 ng of total RNA was amplified by applying Ovation RNA-Seq System V2 (NuGen, Emeryville, CA, USA) after which the resulting cDNAs were pooled in equal amount and the pool was used to prepare the DNA fragment library with SOLiD System chemistry (Life Technologies Corp., Carlsbad, CA, USA). Sequencing was performed using SOLiD 5500W platform and DNA sequencing chemistry (Life Technologies Corp., Carlsbad, CA, USA). Raw reads (75 bp) were color-space mapped to the human genome hg19 reference using Maxmapper algorithm implemented in the Lifescope software (Life Technologies, Ltd). Mapping to multiple locations was permitted. The quality threshold was set to 10 giving the mapping confidence more than 90. Reads with score less than 10 were filtered out. Average mapping quality was 30. Analysis of the RNA content and gene-based annotation was done within whole transcriptome workflow implemented in Lifescope. AB 5500xl-W Genetic Analysis System gds 302652440 GSM2652440 GEO Accession GSM2652440