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Hi, everybody,
Now I'm submitting our illumina sequencing data to NCBI-GEO database.
I used Illumina sequencing approach on small RNA library for microRNA profiling, but I'm not sure which type of below three options are right. Please help me, thanks first!
1. library strategy:
A Short Read Archive-specific field that describes the sequencing technique for this library. Please select one of the following terms:
-ChIP-Seq [Direct sequencing of chromatin immunoprecipitates]
-MNase-Seq [Direct sequencing following MNase digestion]
-EST [Single pass sequencing of cDNA templates]
-FL-cDNA [Full-length sequencing of cDNA templates]
-CTS [Concatenated Tag Sequencing]
-BARCODE [Sequencing of overlapping or distinct products that have been tagged with a short identifying sequence (barcode). Each sequence read can therefore be assigned to an individual product]
-CLONEEND [Clone end (5', 3', or both) sequencing]
-WGS [Whole genome shotgun]
-WCS [Whole chromosome (or other replicon) shotgun]
-CLONE [Genomic clone based (hierarchical) sequencing]
-POOLCLONE [Shotgun of pooled clones (usually BACs and Fosmids)]
-AMPLICON [Sequencing of overlapping or distinct PCR or RT-PCR products]
-FINISHING [Sequencing intended to finish (close) gaps in existing coverage]
-OTHER [Library strategy not listed]
2. library source
A Short Read Archive-specific field which specifies the type of source material that is being sequenced.
Please select one of the following terms:
-genomic
-non-genomic
-synthetic
-viral RNA
-other
3.library selection
A Short Read Archive-specific field. Describes whether any method was used to select and/or enrich the material being sequenced. Please select one of the following terms:
-ChIP [Chromatin immunoprecipitation]
-MNase [Micrococcal Nuclease (MNase) digestion]
-RANDOM [Random shearing only]
-MF [Methyl Filtrated]
-MSLL [Methylation Spanning Linking Library]
-HMPR [Hypo-methylated partial restriction digest]
-cDNA [complementary DNA]
-PCR [Source material was selected by designed primers]
-RANDOM PCR [Source material was selected by randomly generated primers]
-RT-PCR [Source material was selected by reverse transcription PCR]
-CF-S [Cot-filtered single/low-copy genomic DNA]
-CF-M [Cot-filtered moderately repetitive genomic DNA]
-CF-H [Cot-filtered highly repetitive genomic DNA]
-CF-T [Cot-filtered theoretical single-copy genomic DNA]
-other
-unspecified
MZ Li
Colleage of Animal Science & Technology, Sichuan Agricultural University, China
Now I'm submitting our illumina sequencing data to NCBI-GEO database.
I used Illumina sequencing approach on small RNA library for microRNA profiling, but I'm not sure which type of below three options are right. Please help me, thanks first!
1. library strategy:
A Short Read Archive-specific field that describes the sequencing technique for this library. Please select one of the following terms:
-ChIP-Seq [Direct sequencing of chromatin immunoprecipitates]
-MNase-Seq [Direct sequencing following MNase digestion]
-EST [Single pass sequencing of cDNA templates]
-FL-cDNA [Full-length sequencing of cDNA templates]
-CTS [Concatenated Tag Sequencing]
-BARCODE [Sequencing of overlapping or distinct products that have been tagged with a short identifying sequence (barcode). Each sequence read can therefore be assigned to an individual product]
-CLONEEND [Clone end (5', 3', or both) sequencing]
-WGS [Whole genome shotgun]
-WCS [Whole chromosome (or other replicon) shotgun]
-CLONE [Genomic clone based (hierarchical) sequencing]
-POOLCLONE [Shotgun of pooled clones (usually BACs and Fosmids)]
-AMPLICON [Sequencing of overlapping or distinct PCR or RT-PCR products]
-FINISHING [Sequencing intended to finish (close) gaps in existing coverage]
-OTHER [Library strategy not listed]
2. library source
A Short Read Archive-specific field which specifies the type of source material that is being sequenced.
Please select one of the following terms:
-genomic
-non-genomic
-synthetic
-viral RNA
-other
3.library selection
A Short Read Archive-specific field. Describes whether any method was used to select and/or enrich the material being sequenced. Please select one of the following terms:
-ChIP [Chromatin immunoprecipitation]
-MNase [Micrococcal Nuclease (MNase) digestion]
-RANDOM [Random shearing only]
-MF [Methyl Filtrated]
-MSLL [Methylation Spanning Linking Library]
-HMPR [Hypo-methylated partial restriction digest]
-cDNA [complementary DNA]
-PCR [Source material was selected by designed primers]
-RANDOM PCR [Source material was selected by randomly generated primers]
-RT-PCR [Source material was selected by reverse transcription PCR]
-CF-S [Cot-filtered single/low-copy genomic DNA]
-CF-M [Cot-filtered moderately repetitive genomic DNA]
-CF-H [Cot-filtered highly repetitive genomic DNA]
-CF-T [Cot-filtered theoretical single-copy genomic DNA]
-other
-unspecified
MZ Li
Colleage of Animal Science & Technology, Sichuan Agricultural University, China