nstd155 - Adewoye et al 2018 - dbVar Study

nstd155 (Adewoye et al. 2018)

Organism:: Human
Study Type:: Control Set
Submitter:: Edward Hollox
Description:: In this study we use high-coverage phase 3 exome sequences of the 1000 Genomes project to infer diploid copy number of the CCL3L1 genomic region, a well-studied CNV that carries CCL3L1 and CCL4L1. We use the sequence read depth approach to measure copy number, using the CNVrd2 software. See Variant Summary counts for nstd155 in dbVar Variant Summary.
Publication(s):: Adewoye et al. 2018

Links

Source: NCBI

Detailed Information: Download 1 Variant Region, Download 2502 Variant Calls, Download Both, FTP

Variant Summary
Samplesets
Experimental Details
Validations

Variant Summary

Assembly used for analysis:
Remapped: GRCh38.p12 (hg38)
Submitted: GRCh37 (hg19)

Variant Summary for:

Sequence ID	Chr	Number of Variant Regions	Number of Variant Calls	Placement type	Link to graphical display
NT_187661.1	Chr17\|NT_187661.1	1	2,502	Remapped	NT_187661.1

Sequence ID	Chr	Number of Variant Regions	Number of Variant Calls	Placement type	Link to graphical display
NC_000017.10	Chr17	1	2,502	Submitted	NC_000017.10

Remapping summary:

			Variant Region remap status						Variant Call remap status
Sequence ID	Chr	Variant Regions on source	Perfect	Good	Pass	Fail	Mult	Variant Calls on source	Perfect	Good	Pass	Fail	Mult
NC_000017.10	Chr17	1	1	0	0	0	0	2,502	2,502	0	0	0	0

Samplesets

Number of Samplesets: 1

Size:: 2,502
Organisms:: Homo sapiens
Sampleset Phenotype(s):: None reported

Samples for sampleset 1 (displaying 100 of the 2502 samples)
Sample ID	Subject ID	Sex	Ethnicity	Subject Phenotype
HG00126	HG00126	Male	GBR	Not reported
HG00100	HG00100	Female	GBR	Not reported
HG00244	HG00244	Male	GBR	Not reported
HG00114	HG00114	Male	GBR	Not reported
HG00173	HG00173	Female	FIN	Not reported
HG00234	HG00234	Male	GBR	Not reported
HG00150	HG00150	Female	GBR	Not reported
HG00256	HG00256	Male	GBR	Not reported
HG00179	HG00179	Female	FIN	Not reported
HG00255	HG00255	Female	GBR	Not reported
HG00115	HG00115	Male	GBR	Not reported
HG00236	HG00236	Female	GBR	Not reported
HG00096	HG00096	Male	GBR	Not reported
HG00148	HG00148	Male	GBR	Not reported
HG00235	HG00235	Female	GBR	Not reported
HG00257	HG00257	Female	GBR	Not reported
HG00113	HG00113	Male	GBR	Not reported
HG00188	HG00188	Male	FIN	Not reported
HG00185	HG00185	Male	FIN	Not reported
HG00262	HG00262	Female	GBR	Not reported
HG00157	HG00157	Male	GBR	Not reported
HG00133	HG00133	Female	GBR	Not reported
HG00099	HG00099	Female	GBR	Not reported
HG00259	HG00259	Female	GBR	Not reported
HG00177	HG00177	Female	FIN	Not reported
HG00231	HG00231	Female	GBR	Not reported
HG00158	HG00158	Female	GBR	Not reported
HG00130	HG00130	Female	GBR	Not reported
HG00127	HG00127	Female	GBR	Not reported
HG00101	HG00101	Male	GBR	Not reported
HG00176	HG00176	Female	FIN	Not reported
HG00112	HG00112	Male	GBR	Not reported
HG00258	HG00258	Female	GBR	Not reported
HG00186	HG00186	Male	FIN	Not reported
HG00097	HG00097	Female	GBR	Not reported
HG00181	HG00181	Male	FIN	Not reported
HG00121	HG00121	Female	GBR	Not reported
HG00253	HG00253	Female	GBR	Not reported
HG00142	HG00142	Male	GBR	Not reported
HG00254	HG00254	Female	GBR	Not reported
HG00105	HG00105	Male	GBR	Not reported
HG00250	HG00250	Female	GBR	Not reported
HG00120	HG00120	Female	GBR	Not reported
HG00138	HG00138	Male	GBR	Not reported
HG00103	HG00103	Male	GBR	Not reported
HG00141	HG00141	Male	GBR	Not reported
HG00240	HG00240	Female	GBR	Not reported
HG00143	HG00143	Male	GBR	Not reported
HG00187	HG00187	Male	FIN	Not reported
HG00145	HG00145	Male	GBR	Not reported
HG00132	HG00132	Female	GBR	Not reported
HG00137	HG00137	Female	GBR	Not reported
HG00118	HG00118	Female	GBR	Not reported
HG00178	HG00178	Female	FIN	Not reported
HG00260	HG00260	Male	GBR	Not reported
HG00116	HG00116	Male	GBR	Not reported
HG00243	HG00243	Male	GBR	Not reported
HG00261	HG00261	Female	GBR	Not reported
HG00102	HG00102	Female	GBR	Not reported
HG00245	HG00245	Female	GBR	Not reported
HG00107	HG00107	Male	GBR	Not reported
HG00140	HG00140	Male	GBR	Not reported
HG00242	HG00242	Male	GBR	Not reported
HG00190	HG00190	Male	FIN	Not reported
HG00238	HG00238	Female	GBR	Not reported
HG00117	HG00117	Male	GBR	Not reported
HG00128	HG00128	Female	GBR	Not reported
HG00180	HG00180	Female	FIN	Not reported
HG00237	HG00237	Female	GBR	Not reported
HG00129	HG00129	Male	GBR	Not reported
HG00123	HG00123	Female	GBR	Not reported
HG00246	HG00246	Male	GBR	Not reported
HG00139	HG00139	Male	GBR	Not reported
HG00183	HG00183	Male	FIN	Not reported
HG00160	HG00160	Male	GBR	Not reported
HG00109	HG00109	Male	GBR	Not reported
HG00159	HG00159	Male	GBR	Not reported
HG00149	HG00149	Male	GBR	Not reported
HG00125	HG00125	Female	GBR	Not reported
HG00171	HG00171	Female	FIN	Not reported
HG00232	HG00232	Female	GBR	Not reported
HG00174	HG00174	Female	FIN	Not reported
HG00122	HG00122	Female	GBR	Not reported
HG00182	HG00182	Male	FIN	Not reported
HG00110	HG00110	Female	GBR	Not reported
HG00151	HG00151	Male	GBR	Not reported
HG00154	HG00154	Female	GBR	Not reported
HG00136	HG00136	Male	GBR	Not reported
HG00251	HG00251	Male	GBR	Not reported
HG00155	HG00155	Male	GBR	Not reported
HG00111	HG00111	Female	GBR	Not reported
HG00233	HG00233	Female	GBR	Not reported
HG00189	HG00189	Male	FIN	Not reported
HG00106	HG00106	Female	GBR	Not reported
HG00252	HG00252	Male	GBR	Not reported
HG00108	HG00108	Male	GBR	Not reported
HG00131	HG00131	Male	GBR	Not reported
HG00119	HG00119	Male	GBR	Not reported
HG00146	HG00146	Female	GBR	Not reported
HG00239	HG00239	Female	GBR	Not reported

Experimental Details

Experiment ID	Type	Method	Analysis	Number of Variant Calls
1	Discovery	Sequencing	Read depth	2,502

dbVar

Database of genomic structural variation

nstd155 (Adewoye et al. 2018)

Links

Detailed Information: Download 1 Variant Region, Download 2502 Variant Calls, Download Both, FTP

Variant Summary

Assembly used for analysis:
Remapped: GRCh38.p12 (hg38)
Submitted: GRCh37 (hg19)

Variant Summary for:

Remapping summary:

Samplesets

Number of Samplesets: 1

Experimental Details

Validations

No validation data were submitted for this study.

dbVar

Database of genomic structural variation

nstd155 (Adewoye et al. 2018)

Links

Detailed Information: Download 1 Variant Region, Download 2502 Variant Calls, Download Both, FTP

Variant Summary

Variant Summary for: GRCh38.p12 (hg38)GRCh37 (hg19)

Remapping summary: GRCh37->GRCh38.p12

Samplesets

Number of Samplesets: 1

Experimental Details

Validations

No validation data were submitted for this study.

Variant Summary for:

Remapping summary: