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13 WGS and 8 TCS data of ENKL patients treated with pembrolizumab.

Whole-genome sequencing (WGS) was performed for 13 pairs of tumor-normal samples from patients diagnosed with NKTL. Genomic DNA from tumor tissue was extracted with QIAamp DNA Mini Kit. The DNA for the matching normal was obtained from blood or buccal swabs and purified by Blood and Cell Culture DNA Mini kit or E.Z.N.A. Tissue DNA Kit (Omega Bio-tek) according to manufacturer’s instructions. The quantity and quality were assessed by Quant-iT PicoGreen dsDNA Assay Kit (Invitrogen) and agarose gel electrophoresis. All sequencing libraries were prepared using TruSeq Nano DNA Library Prep Kit (Illumina). Paired-end sequencing was performed on Illumina HiSeq 2000 or HiSeq X Ten as 2x101 bp or 2x151 bp, respectively. 8 NKTL FFPE specimens were screened for somatic mutations using deep targeted capture sequencing (TCS). FFPE rolls or slides were extracted using QIAamp DNA FFPE Tissue kit (QIAGEN). The FFPE genomic DNA was treated with NEBNext FFPE DNA Repair Mix and assessed by Quant-it PicoGreen dsDNA Assay Kit (Invitrogen). The library was generated from 10-200 ng DNA with SureSelectXT Low Input Target Enrichment System for Illumina Paired-End Sequencing Library (Agilent Technologies) according to manufacturer’s instructions. RNA based probe was designed with SureDesign (Agilent Technologies) to target-capture 140 genes. Next, the captured libraries were pooled in equimolar concentration and sequenced on Illumina Novaseq 6000 platform with SP or S1 chip. Reads aligning to 40 selected genes were isolated post-alignment for this submission. Prefix used in filenames: T - Tumor samples N - Matched-Normal samples

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Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.

Study ID Study Title Study Type
EGAS00001003828 Other
ID File Type Size Located in
EGAF00001590038 fastq.gz 59.3 GB
EGAF00001590039 fastq.gz 68.1 GB
EGAF00001590040 fq.gz 67.4 GB
EGAF00001590041 fq.gz 74.3 GB
EGAF00002015424 fastq.gz 60.6 GB
EGAF00002015425 fastq.gz 71.2 GB
EGAF00002015426 fastq.gz 30.7 GB
EGAF00002015427 fastq.gz 37.5 GB
EGAF00002015428 fastq.gz 25.4 GB
EGAF00002015429 fastq.gz 31.3 GB
EGAF00002015430 fastq.gz 30.0 GB
EGAF00002015431 fastq.gz 32.5 GB
EGAF00002015432 fastq.gz 29.8 GB
EGAF00002015433 fastq.gz 32.5 GB
EGAF00002015434 fastq.gz 27.4 GB
EGAF00002015435 fastq.gz 30.0 GB
EGAF00002015436 fastq.gz 61.1 GB
EGAF00002015437 fastq.gz 70.6 GB
EGAF00002015438 fastq.gz 68.9 GB
EGAF00002015439 fastq.gz 79.2 GB
EGAF00002015440 fastq.gz 74.2 GB
EGAF00002015441 fastq.gz 85.3 GB
EGAF00002015442 fastq.gz 107.9 GB
EGAF00002015443 fastq.gz 120.2 GB
EGAF00002015444 fastq.gz 106.2 GB
EGAF00002015445 fastq.gz 118.7 GB
EGAF00002015446 fastq.gz 111.3 GB
EGAF00002015447 fastq.gz 125.0 GB
EGAF00002036188 fastq.gz 36.6 GB
EGAF00002036189 fastq.gz 45.5 GB
EGAF00002036190 fastq.gz 102.0 GB
EGAF00002036191 fastq.gz 114.6 GB
EGAF00002051981 fastq.gz 30.5 GB
EGAF00002051982 fastq.gz 35.9 GB
EGAF00002051983 fastq.gz 77.7 GB
EGAF00002051984 fastq.gz 96.2 GB
EGAF00002051985 fastq.gz 27.4 GB
EGAF00002051986 fastq.gz 32.2 GB
EGAF00002051987 fastq.gz 75.8 GB
EGAF00002051988 fastq.gz 93.9 GB
EGAF00002051989 fastq.gz 30.4 GB
EGAF00002051990 fastq.gz 35.7 GB
EGAF00002051991 fastq.gz 71.3 GB
EGAF00002051992 fastq.gz 88.4 GB
EGAF00002549039 fastq.gz 31.7 GB
EGAF00002549040 fastq.gz 33.0 GB
EGAF00002549041 fq.gz 66.7 GB
EGAF00002549042 fq.gz 68.5 GB
EGAF00002549043 fastq.gz 38.5 GB
EGAF00002549044 fastq.gz 40.3 GB
EGAF00002549045 fq.gz 59.3 GB
EGAF00002549046 fq.gz 63.6 GB
EGAF00003470720 fq.gz 908.2 MB
EGAF00003470721 fq.gz 942.4 MB
EGAF00003470722 fq.gz 2.2 GB
EGAF00003470723 fq.gz 2.8 GB
EGAF00003470724 fq.gz 2.3 GB
EGAF00003470725 fq.gz 2.9 GB
EGAF00003470726 fq.gz 1.9 GB
EGAF00003470727 fq.gz 2.0 GB
EGAF00003470728 fq.gz 1.9 GB
EGAF00003470729 fq.gz 1.9 GB
EGAF00003470730 fq.gz 2.1 GB
EGAF00003470731 fq.gz 2.1 GB
EGAF00003470732 fq.gz 2.0 GB
EGAF00003470733 fq.gz 2.0 GB
EGAF00003470734 fq.gz 1.8 GB
EGAF00003470735 fq.gz 1.8 GB
68 Files (3.3 TB)