Data from: Systems analysis of adaptive responses to MAP Kinase pathway blockade in BRAF mutant melanoma

Capaldo BJ, Roller D, Axelrod MJ, Koeppel AF, Petricoin EF, Slingluff CL, Weber MJ, Mackey AJ, Gioeli D, Bekiranov S

Date Published: September 17, 2015

DOI: http://dx.doi.org/10.5061/dryad.9gn07

 

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Title SNP, insertion, and deletion calls made by GATK on panel of melanoma cell lines
Downloaded 13 times
Description VCF file was generated using GATK
Download masterSnpCallsInDels.vcf (30.37 Mb)
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Title Sample ID and coverage stats table
Downloaded 4 times
Description Table contains columns for mapping cell lines to exome files, as well as average coverage and quantification of bases that had a Phred quality score of 20 or better.
Download dbGaPStatsTable.txt (1.581 Kb)
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Title 1120AJM0001
Description Archive of BAM files generated from exome sequencing of 16 melanoma cell lines. Exome sequences were generated using a combination of Agilent and NimbleGen captures. Variant calls as well as insertion and deletion calls were made using GATK.
Download 1120AJM0001.bam (8.115 Gb)
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Title 1120AJM0002
Downloaded 1 time
Description Archive of BAM files generated from exome sequencing of 16 melanoma cell lines. Exome sequences were generated using a combination of Agilent and NimbleGen captures. Variant calls as well as insertion and deletion calls were made using GATK.
Download 1120AJM0002.bam (8.298 Gb)
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Title 1120AJM0003
Downloaded 2 times
Description Archive of BAM files generated from exome sequencing of 16 melanoma cell lines. Exome sequences were generated using a combination of Agilent and NimbleGen captures. Variant calls as well as insertion and deletion calls were made using GATK.
Download 1120AJM0003.bam (7.128 Gb)
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Title 1316AJM0001
Downloaded 1 time
Description Archive of BAM files generated from exome sequencing of 16 melanoma cell lines. Exome sequences were generated using a combination of Agilent and NimbleGen captures. Variant calls as well as insertion and deletion calls were made using GATK.
Download 1316AJM0001.bam (7.907 Gb)
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Title 1316AJM0002
Downloaded 2 times
Description Archive of BAM files generated from exome sequencing of 16 melanoma cell lines. Exome sequences were generated using a combination of Agilent and NimbleGen captures. Variant calls as well as insertion and deletion calls were made using GATK.
Download 1316AJM0002.bam (10.15 Gb)
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Title 1371AJM0006
Downloaded 1 time
Description Archive of BAM files generated from exome sequencing of 16 melanoma cell lines. Exome sequences were generated using a combination of Agilent and NimbleGen captures. Variant calls as well as insertion and deletion calls were made using GATK.
Download 1371AJM0006.bam (4.654 Gb)
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Title 1371AJM0007
Downloaded 2 times
Description Archive of BAM files generated from exome sequencing of 16 melanoma cell lines. Exome sequences were generated using a combination of Agilent and NimbleGen captures. Variant calls as well as insertion and deletion calls were made using GATK.
Download 1371AJM0007.bam (5.288 Gb)
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Title 1371AJM0008
Downloaded 2 times
Description Archive of BAM files generated from exome sequencing of 16 melanoma cell lines. Exome sequences were generated using a combination of Agilent and NimbleGen captures. Variant calls as well as insertion and deletion calls were made using GATK.
Download 1371AJM0008.bam (6.374 Gb)
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Title 1371AJM0009
Downloaded 2 times
Description Archive of BAM files generated from exome sequencing of 16 melanoma cell lines. Exome sequences were generated using a combination of Agilent and NimbleGen captures. Variant calls as well as insertion and deletion calls were made using GATK.
Download 1371AJM0009.bam (5.799 Gb)
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Title 1371AJM0010
Downloaded 1 time
Description Archive of BAM files generated from exome sequencing of 16 melanoma cell lines. Exome sequences were generated using a combination of Agilent and NimbleGen captures. Variant calls as well as insertion and deletion calls were made using GATK.
Download 1371AJM0010.bam (6.117 Gb)
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Title 1533AJM0004_bwa
Downloaded 2 times
Description Archive of BAM files generated from exome sequencing of 16 melanoma cell lines. Exome sequences were generated using a combination of Agilent and NimbleGen captures. Variant calls as well as insertion and deletion calls were made using GATK.
Download 1533AJM0004_bwa.bam (9.109 Gb)
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Title 1533AJM0005_bwa
Description Archive of BAM files generated from exome sequencing of 16 melanoma cell lines. Exome sequences were generated using a combination of Agilent and NimbleGen captures. Variant calls as well as insertion and deletion calls were made using GATK.
Download 1533AJM0005_bwa.bam (7.814 Gb)
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Title 1533AJM0006_bwa
Description Archive of BAM files generated from exome sequencing of 16 melanoma cell lines. Exome sequences were generated using a combination of Agilent and NimbleGen captures. Variant calls as well as insertion and deletion calls were made using GATK.
Download 1533AJM0006_bwa.bam (10.07 Gb)
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Title 1533AJM0007_bwa
Downloaded 2 times
Description Archive of BAM files generated from exome sequencing of 16 melanoma cell lines. Exome sequences were generated using a combination of Agilent and NimbleGen captures. Variant calls as well as insertion and deletion calls were made using GATK.
Download 1533AJM0007_bwa.bam (8.198 Gb)
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Title 1533AJM0008_bwa
Downloaded 1 time
Description Archive of BAM files generated from exome sequencing of 16 melanoma cell lines. Exome sequences were generated using a combination of Agilent and NimbleGen captures. Variant calls as well as insertion and deletion calls were made using GATK.
Download 1533AJM0008_bwa.bam (8.350 Gb)
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Title 1533AJM0009_bwa
Downloaded 3 times
Description Archive of BAM files generated from exome sequencing of 16 melanoma cell lines. Exome sequences were generated using a combination of Agilent and NimbleGen captures. Variant calls as well as insertion and deletion calls were made using GATK.
Download 1533AJM0009_bwa.bam (8.346 Gb)
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When using this data, please cite the original publication:

Capaldo BJ, Roller D, Axelrod MJ, Koeppel AF, Petricoin EF, Slingluff CL, Weber MJ, Mackey AJ, Gioeli D, Bekiranov S (2015) Systems analysis of adaptive responses to MAP Kinase pathway blockade in BRAF mutant melanoma. PLOS ONE 10(9): e0138210. http://dx.doi.org/10.1371/journal.pone.0138210

Additionally, please cite the Dryad data package:

Capaldo BJ, Roller D, Axelrod MJ, Koeppel AF, Petricoin EF, Slingluff CL, Weber MJ, Mackey AJ, Gioeli D, Bekiranov S (2015) Data from: Systems analysis of adaptive responses to MAP Kinase pathway blockade in BRAF mutant melanoma. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.9gn07
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