SRX1000332 GSM1661817 SRP057459 SRS914299 GSM1661817 RNA-Seq TRANSCRIPTOMIC cDNA NP366+ CD8+ T cells were purified by flow cytometric sorting from day 9 HKx31-infected PR8-primed mixed bone marrow chimeras. Total RNA was prepared using a Qiagen RNeasy Plus Mini Kit (Qiagen) according to the manufacturers instructions. RNA-seq was carried out based on a previously published single-cell protocol (Tang, F. et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell. Nature protocols 5, 516-535, 2010). Samples were sequenced on a Solexa 1G Genome Analyzer instrument (Illumina) at the National Heart Lung and Blood Institute. RNA libraries were prepared for sequencing using standard Illumina protocols. Illumina Genome Analyzer GEO Sample GSM1661817 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1661817 gds 301661817 GEO Accession GSM1661817 SRX1000333 GSM1661818 SRP057459 SRS914298 GSM1661818 RNA-Seq TRANSCRIPTOMIC cDNA NP366+ CD8+ T cells were purified by flow cytometric sorting from day 9 HKx31-infected PR8-primed mixed bone marrow chimeras. Total RNA was prepared using a Qiagen RNeasy Plus Mini Kit (Qiagen) according to the manufacturers instructions. RNA-seq was carried out based on a previously published single-cell protocol (Tang, F. et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell. Nature protocols 5, 516-535, 2010). Samples were sequenced on a Solexa 1G Genome Analyzer instrument (Illumina) at the National Heart Lung and Blood Institute. RNA libraries were prepared for sequencing using standard Illumina protocols. Illumina Genome Analyzer GEO Sample GSM1661818 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1661818 gds 301661818 GEO Accession GSM1661818 SRX1000334 GSM1661819 SRP057459 SRS914297 GSM1661819 RNA-Seq TRANSCRIPTOMIC cDNA NP366+ CD8+ T cells were purified by flow cytometric sorting from day 9 HKx31-infected PR8-primed mixed bone marrow chimeras. Total RNA was prepared using a Qiagen RNeasy Plus Mini Kit (Qiagen) according to the manufacturers instructions. RNA-seq was carried out based on a previously published single-cell protocol (Tang, F. et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell. Nature protocols 5, 516-535, 2010). Samples were sequenced on a Solexa 1G Genome Analyzer instrument (Illumina) at the National Heart Lung and Blood Institute. RNA libraries were prepared for sequencing using standard Illumina protocols. Illumina Genome Analyzer GEO Sample GSM1661819 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1661819 gds 301661819 GEO Accession GSM1661819 SRX1000335 GSM1661820 SRP057459 SRS914296 GSM1661820 RNA-Seq TRANSCRIPTOMIC cDNA NP366+ CD8+ T cells were purified by flow cytometric sorting from day 9 HKx31-infected PR8-primed mixed bone marrow chimeras. Total RNA was prepared using a Qiagen RNeasy Plus Mini Kit (Qiagen) according to the manufacturers instructions. RNA-seq was carried out based on a previously published single-cell protocol (Tang, F. et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell. Nature protocols 5, 516-535, 2010). Samples were sequenced on a Solexa 1G Genome Analyzer instrument (Illumina) at the National Heart Lung and Blood Institute. RNA libraries were prepared for sequencing using standard Illumina protocols. Illumina Genome Analyzer GEO Sample GSM1661820 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1661820 gds 301661820 GEO Accession GSM1661820 SRX1000336 GSM1661821 SRP057459 SRS914295 GSM1661821 RNA-Seq TRANSCRIPTOMIC cDNA NP366+ CD8+ T cells were purified by flow cytometric sorting from day 9 HKx31-infected PR8-primed mixed bone marrow chimeras. Total RNA was prepared using a Qiagen RNeasy Plus Mini Kit (Qiagen) according to the manufacturers instructions. RNA-seq was carried out based on a previously published single-cell protocol (Tang, F. et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell. Nature protocols 5, 516-535, 2010). Samples were sequenced on a Solexa 1G Genome Analyzer instrument (Illumina) at the National Heart Lung and Blood Institute. RNA libraries were prepared for sequencing using standard Illumina protocols. Illumina Genome Analyzer GEO Sample GSM1661821 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1661821 gds 301661821 GEO Accession GSM1661821 SRX1000337 GSM1661822 SRP057459 SRS914294 GSM1661822 RNA-Seq TRANSCRIPTOMIC cDNA NP366+ CD8+ T cells were purified by flow cytometric sorting from day 9 HKx31-infected PR8-primed mixed bone marrow chimeras. Total RNA was prepared using a Qiagen RNeasy Plus Mini Kit (Qiagen) according to the manufacturers instructions. RNA-seq was carried out based on a previously published single-cell protocol (Tang, F. et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell. Nature protocols 5, 516-535, 2010). Samples were sequenced on a Solexa 1G Genome Analyzer instrument (Illumina) at the National Heart Lung and Blood Institute. RNA libraries were prepared for sequencing using standard Illumina protocols. Illumina Genome Analyzer GEO Sample GSM1661822 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1661822 gds 301661822 GEO Accession GSM1661822 SRX1000338 GSM1661823 SRP057459 SRS914293 GSM1661823 RNA-Seq TRANSCRIPTOMIC cDNA NP366+ CD8+ T cells were purified by flow cytometric sorting from day 9 HKx31-infected PR8-primed mixed bone marrow chimeras. Total RNA was prepared using a Qiagen RNeasy Plus Mini Kit (Qiagen) according to the manufacturers instructions. RNA-seq was carried out based on a previously published single-cell protocol (Tang, F. et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell. Nature protocols 5, 516-535, 2010). Samples were sequenced on a Solexa 1G Genome Analyzer instrument (Illumina) at the National Heart Lung and Blood Institute. RNA libraries were prepared for sequencing using standard Illumina protocols. Illumina Genome Analyzer GEO Sample GSM1661823 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1661823 gds 301661823 GEO Accession GSM1661823 SRX1000339 GSM1661824 SRP057459 SRS914292 GSM1661824 RNA-Seq TRANSCRIPTOMIC cDNA NP366+ CD8+ T cells were purified by flow cytometric sorting from day 9 HKx31-infected PR8-primed mixed bone marrow chimeras. Total RNA was prepared using a Qiagen RNeasy Plus Mini Kit (Qiagen) according to the manufacturers instructions. RNA-seq was carried out based on a previously published single-cell protocol (Tang, F. et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell. Nature protocols 5, 516-535, 2010). Samples were sequenced on a Solexa 1G Genome Analyzer instrument (Illumina) at the National Heart Lung and Blood Institute. RNA libraries were prepared for sequencing using standard Illumina protocols. Illumina Genome Analyzer GEO Sample GSM1661824 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1661824 gds 301661824 GEO Accession GSM1661824 SRX1000340 GSM1661825 SRP057459 SRS914291 GSM1661825 RNA-Seq TRANSCRIPTOMIC cDNA NP366+ CD8+ T cells were purified by flow cytometric sorting from day 9 HKx31-infected PR8-primed mixed bone marrow chimeras. Total RNA was prepared using a Qiagen RNeasy Plus Mini Kit (Qiagen) according to the manufacturers instructions. RNA-seq was carried out based on a previously published single-cell protocol (Tang, F. et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell. Nature protocols 5, 516-535, 2010). Samples were sequenced on a Solexa 1G Genome Analyzer instrument (Illumina) at the National Heart Lung and Blood Institute. RNA libraries were prepared for sequencing using standard Illumina protocols. Illumina Genome Analyzer GEO Sample GSM1661825 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1661825 gds 301661825 GEO Accession GSM1661825 SRX1000341 GSM1661826 SRP057459 SRS914290 GSM1661826 RNA-Seq TRANSCRIPTOMIC cDNA NP366+ CD8+ T cells were purified by flow cytometric sorting from day 9 HKx31-infected PR8-primed mixed bone marrow chimeras. Total RNA was prepared using a Qiagen RNeasy Plus Mini Kit (Qiagen) according to the manufacturers instructions. RNA-seq was carried out based on a previously published single-cell protocol (Tang, F. et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell. Nature protocols 5, 516-535, 2010). Samples were sequenced on a Solexa 1G Genome Analyzer instrument (Illumina) at the National Heart Lung and Blood Institute. RNA libraries were prepared for sequencing using standard Illumina protocols. Illumina Genome Analyzer GEO Sample GSM1661826 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1661826 gds 301661826 GEO Accession GSM1661826 SRX1000342 GSM1661827 SRP057459 SRS914289 GSM1661827 RNA-Seq TRANSCRIPTOMIC cDNA NP366+ CD8+ T cells were purified by flow cytometric sorting from day 9 HKx31-infected PR8-primed mixed bone marrow chimeras. Total RNA was prepared using a Qiagen RNeasy Plus Mini Kit (Qiagen) according to the manufacturers instructions. RNA-seq was carried out based on a previously published single-cell protocol (Tang, F. et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell. Nature protocols 5, 516-535, 2010). Samples were sequenced on a Solexa 1G Genome Analyzer instrument (Illumina) at the National Heart Lung and Blood Institute. RNA libraries were prepared for sequencing using standard Illumina protocols. Illumina Genome Analyzer GEO Sample GSM1661827 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1661827 gds 301661827 GEO Accession GSM1661827 SRX1000343 GSM1661828 SRP057459 SRS914288 GSM1661828 RNA-Seq TRANSCRIPTOMIC cDNA NP366+ CD8+ T cells were purified by flow cytometric sorting from day 9 HKx31-infected PR8-primed mixed bone marrow chimeras. Total RNA was prepared using a Qiagen RNeasy Plus Mini Kit (Qiagen) according to the manufacturers instructions. RNA-seq was carried out based on a previously published single-cell protocol (Tang, F. et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell. Nature protocols 5, 516-535, 2010). Samples were sequenced on a Solexa 1G Genome Analyzer instrument (Illumina) at the National Heart Lung and Blood Institute. RNA libraries were prepared for sequencing using standard Illumina protocols. Illumina Genome Analyzer GEO Sample GSM1661828 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1661828 gds 301661828 GEO Accession GSM1661828 SRX1000344 GSM1661829 SRP057459 SRS914283 GSM1661829 RNA-Seq TRANSCRIPTOMIC cDNA NP366+ CD8+ T cells were purified by flow cytometric sorting from day 9 HKx31-infected PR8-primed mixed bone marrow chimeras. Total RNA was prepared using a Qiagen RNeasy Plus Mini Kit (Qiagen) according to the manufacturers instructions. RNA-seq was carried out based on a previously published single-cell protocol (Tang, F. et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell. Nature protocols 5, 516-535, 2010). Samples were sequenced on a Solexa 1G Genome Analyzer instrument (Illumina) at the National Heart Lung and Blood Institute. RNA libraries were prepared for sequencing using standard Illumina protocols. Illumina Genome Analyzer GEO Sample GSM1661829 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1661829 gds 301661829 GEO Accession GSM1661829 SRX1000345 GSM1661830 SRP057459 SRS914282 GSM1661830 RNA-Seq TRANSCRIPTOMIC cDNA NP366+ CD8+ T cells were purified by flow cytometric sorting from day 9 HKx31-infected PR8-primed mixed bone marrow chimeras. Total RNA was prepared using a Qiagen RNeasy Plus Mini Kit (Qiagen) according to the manufacturers instructions. RNA-seq was carried out based on a previously published single-cell protocol (Tang, F. et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell. Nature protocols 5, 516-535, 2010). Samples were sequenced on a Solexa 1G Genome Analyzer instrument (Illumina) at the National Heart Lung and Blood Institute. RNA libraries were prepared for sequencing using standard Illumina protocols. Illumina Genome Analyzer GEO Sample GSM1661830 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1661830 gds 301661830 GEO Accession GSM1661830 SRX1000346 GSM1661831 SRP057459 SRS914281 GSM1661831 RNA-Seq TRANSCRIPTOMIC cDNA NP366+ CD8+ T cells were purified by flow cytometric sorting from day 9 HKx31-infected PR8-primed mixed bone marrow chimeras. Total RNA was prepared using a Qiagen RNeasy Plus Mini Kit (Qiagen) according to the manufacturers instructions. RNA-seq was carried out based on a previously published single-cell protocol (Tang, F. et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell. Nature protocols 5, 516-535, 2010). Samples were sequenced on a Solexa 1G Genome Analyzer instrument (Illumina) at the National Heart Lung and Blood Institute. RNA libraries were prepared for sequencing using standard Illumina protocols. Illumina Genome Analyzer GEO Sample GSM1661831 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1661831 gds 301661831 GEO Accession GSM1661831 SRX1000347 GSM1661832 SRP057459 SRS914280 GSM1661832 RNA-Seq TRANSCRIPTOMIC cDNA NP366+ CD8+ T cells were purified by flow cytometric sorting from day 9 HKx31-infected PR8-primed mixed bone marrow chimeras. Total RNA was prepared using a Qiagen RNeasy Plus Mini Kit (Qiagen) according to the manufacturers instructions. RNA-seq was carried out based on a previously published single-cell protocol (Tang, F. et al. RNA-Seq analysis to capture the transcriptome landscape of a single cell. Nature protocols 5, 516-535, 2010). Samples were sequenced on a Solexa 1G Genome Analyzer instrument (Illumina) at the National Heart Lung and Blood Institute. RNA libraries were prepared for sequencing using standard Illumina protocols. Illumina Genome Analyzer GEO Sample GSM1661832 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1661832 gds 301661832 GEO Accession GSM1661832