SRA Constants¶

Using the XML schema from SRA I developed a list of expected constants. These constants are used to validate data coming from the SRA.

Study Types
Library Strategy
Library Source
Library Selection
Library Layout
Platforms
Instrument Models

Study Types ¶

Cancer Genomics
Epigenetics
Exome Sequencing
Metagenomics
Other
Pooled Clone Sequencing
Population Genomics
Synthetic Genomics
Transcriptome Analysis
Whole Genome Sequencing

Library Strategy ¶

AMPLICON
Bisulfite-Seq
ChIP-Seq
CLONE
CLONEEND
CTS
DNase-Hypersensitivity
EST
FAIRE-seq
FINISHING
FL-cDNA
MBD-Seq
MeDIP-Seq
miRNA-Seq
MNase-Seq
MRE-Seq
ncRNA-Seq
OTHER
POOLCLONE
RIP-Seq
RNA-Seq
Synthetic-Long-Read
SELEX
Tn-Seq
WCS
WGA
WGS
WXS

Library Source ¶

GENOMIC
METAGENOMIC
METATRANSCRIPTOMIC
NON GENOMIC
OTHER
SYNTHETIC
TRANSCRIPTOMIC
VIRAL RNA

Library Selection ¶

5-methylcytidine antibody
CAGE
cDNA
CF-H
CF-M
CF-S
CF-T
ChIP
DNAse
HMPR
Hybrid Selection
MBD2 protein methyl-CpG binding domain
MDA
MF
MNase
MSLL
Oligo-dT
other
padlock probes capture method
PCR
PolyA
RACE
RANDOM
RANDOM PCR
Reduced Representation
Restriction Digest
RT-PCR
size fractionation
unspecified

Library Layout ¶

PAIRED
SINGLE

Platforms ¶

ABI_SOLID
CAPILLARY
COMPLETE_GENOMICS
HELICOS
ILLUMINA
ION_TORRENT
LS454
OXFORD_NANOPORE
PACBIO_SMRT

Instrument Models ¶

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