nstd50 (Arlt et al. 2011)
- Organism:
- Human
- Study Type:
- Control Set
- Submitter:
- Thomas Wilson
- Description:
- To compare available whole-genome approaches for scoring genome structural variation, data from both 1M feature single-nucleotide polymorphism (SNP) arrays and low-density mate-pair sequencing were mined using a new computational platform, VAMP, to detect both constitutional CNVs in a single individual as well as de novo CNVs induced by the replication stressor aphidicolin. See Variant Summary counts for nstd50 in dbVar Variant Summary.
- Publication(s):
- Arlt et al. 2011
Detailed Information: Download 2637 Variant Regions, Download 2637 Variant Calls, Download Both, FTP
Variant Summary
Assembly used for analysis:
Remapped: GRCh38.p12 (hg38)
Remapped: GRCh37.p13 (hg19)
Submitted: NCBI36 (hg18)
| Sequence ID | Chr | Number of Variant Regions | Number of Variant Calls | Placement type | Link to graphical display |
|---|---|---|---|---|---|
| NC_000001.11 | Chr1 | 181 | 181 | Remapped | NC_000001.11 |
| NC_000002.12 | Chr2 | 171 | 171 | Remapped | NC_000002.12 |
| NC_000003.12 | Chr3 | 159 | 159 | Remapped | NC_000003.12 |
| NC_000004.12 | Chr4 | 165 | 165 | Remapped | NC_000004.12 |
| NC_000005.10 | Chr5 | 143 | 143 | Remapped | NC_000005.10 |
| NC_000006.12 | Chr6 | 194 | 194 | Remapped | NC_000006.12 |
| NC_000007.14 | Chr7 | 143 | 143 | Remapped | NC_000007.14 |
| NC_000008.11 | Chr8 | 140 | 140 | Remapped | NC_000008.11 |
| NC_000009.12 | Chr9 | 104 | 104 | Remapped | NC_000009.12 |
| NC_000010.11 | Chr10 | 120 | 120 | Remapped | NC_000010.11 |
| NC_000011.10 | Chr11 | 129 | 129 | Remapped | NC_000011.10 |
| NC_000012.12 | Chr12 | 117 | 117 | Remapped | NC_000012.12 |
| NC_000013.11 | Chr13 | 90 | 90 | Remapped | NC_000013.11 |
| NC_000014.9 | Chr14 | 73 | 73 | Remapped | NC_000014.9 |
| NC_000015.10 | Chr15 | 65 | 65 | Remapped | NC_000015.10 |
| NC_000016.10 | Chr16 | 86 | 86 | Remapped | NC_000016.10 |
| NC_000017.11 | Chr17 | 103 | 103 | Remapped | NC_000017.11 |
| NC_000018.10 | Chr18 | 66 | 66 | Remapped | NC_000018.10 |
| NC_000019.10 | Chr19 | 95 | 95 | Remapped | NC_000019.10 |
| NC_000020.11 | Chr20 | 67 | 67 | Remapped | NC_000020.11 |
| NC_000021.9 | Chr21 | 39 | 39 | Remapped | NC_000021.9 |
| NC_000022.11 | Chr22 | 55 | 55 | Remapped | NC_000022.11 |
| NC_000023.11 | ChrX | 104 | 104 | Remapped | NC_000023.11 |
| NT_187519.1 | Chr1|NT_187519.1 | 3 | 3 | Remapped | NT_187519.1 |
| NW_003315907.2 | Chr1|NW_003315907.2 | 1 | 1 | Remapped | NW_003315907.2 |
| NW_009646195.1 | Chr1|NW_009646195.1 | 1 | 1 | Remapped | NW_009646195.1 |
| NW_011332688.1 | Chr1|NW_011332688.1 | 4 | 4 | Remapped | NW_011332688.1 |
| NW_012132914.1 | Chr1|NW_012132914.1 | 1 | 1 | Remapped | NW_012132914.1 |
| NW_014040926.1 | Chr1|NW_014040926.1 | 1 | 1 | Remapped | NW_014040926.1 |
| NW_018654707.1 | Chr1|NW_018654707.1 | 3 | 3 | Remapped | NW_018654707.1 |
| NW_018654708.1 | Chr1|NW_018654708.1 | 1 | 1 | Remapped | NW_018654708.1 |
| NW_019805487.1 | Chr1|NW_019805487.1 | 1 | 1 | Remapped | NW_019805487.1 |
| NT_187527.1 | Chr2|NT_187527.1 | 1 | 1 | Remapped | NT_187527.1 |
| NT_187529.1 | Chr2|NT_187529.1 | 6 | 6 | Remapped | NT_187529.1 |
| NW_012132915.1 | Chr2|NW_012132915.1 | 1 | 1 | Remapped | NW_012132915.1 |
| NT_187539.1 | Chr3|NT_187539.1 | 2 | 2 | Remapped | NT_187539.1 |
| NW_009646197.1 | Chr3|NW_009646197.1 | 2 | 2 | Remapped | NW_009646197.1 |
| NT_187679.1 | Chr4|NT_187679.1 | 3 | 3 | Remapped | NT_187679.1 |
| NT_187543.1 | Chr4|NT_187543.1 | 2 | 2 | Remapped | NT_187543.1 |
| NT_187650.1 | Chr4|NT_187650.1 | 2 | 2 | Remapped | NT_187650.1 |
| NW_003315915.1 | Chr4|NW_003315915.1 | 2 | 2 | Remapped | NW_003315915.1 |
| NT_187548.1 | Chr5|NT_187548.1 | 2 | 2 | Remapped | NT_187548.1 |
| NT_187550.1 | Chr5|NT_187550.1 | 1 | 1 | Remapped | NT_187550.1 |
| NT_187651.1 | Chr5|NT_187651.1 | 2 | 2 | Remapped | NT_187651.1 |
| NW_009646199.1 | Chr5|NW_009646199.1 | 1 | 1 | Remapped | NW_009646199.1 |
| NW_016107298.1 | Chr5|NW_016107298.1 | 1 | 1 | Remapped | NW_016107298.1 |
| NT_187692.1 | Chr6|NT_187692.1 | 1 | 1 | Remapped | NT_187692.1 |
| NT_167246.2 | Chr6|NT_167246.2 | 16 | 16 | Remapped | NT_167246.2 |
| NT_167247.2 | Chr6|NT_167247.2 | 15 | 15 | Remapped | NT_167247.2 |
| NT_167249.2 | Chr6|NT_167249.2 | 10 | 10 | Remapped | NT_167249.2 |
| NT_167245.2 | Chr6|NT_167245.2 | 3 | 3 | Remapped | NT_167245.2 |
| NT_167244.2 | Chr6|NT_167244.2 | 1 | 1 | Remapped | NT_167244.2 |
| NT_187552.1 | Chr6|NT_187552.1 | 1 | 1 | Remapped | NT_187552.1 |
| NT_187553.1 | Chr6|NT_187553.1 | 2 | 2 | Remapped | NT_187553.1 |
| NT_187555.1 | Chr6|NT_187555.1 | 1 | 1 | Remapped | NT_187555.1 |
| NT_187558.1 | Chr7|NT_187558.1 | 1 | 1 | Remapped | NT_187558.1 |
| NT_187560.1 | Chr7|NT_187560.1 | 1 | 1 | Remapped | NT_187560.1 |
| NT_187562.1 | Chr7|NT_187562.1 | 1 | 1 | Remapped | NT_187562.1 |
| NT_187563.1 | Chr7|NT_187563.1 | 1 | 1 | Remapped | NT_187563.1 |
| NT_187564.1 | Chr7|NT_187564.1 | 1 | 1 | Remapped | NT_187564.1 |
| NT_187653.1 | Chr7|NT_187653.1 | 1 | 1 | Remapped | NT_187653.1 |
| NW_012132919.1 | Chr7|NW_012132919.1 | 1 | 1 | Remapped | NW_012132919.1 |
| NW_017852930.1 | Chr7|NW_017852930.1 | 1 | 1 | Remapped | NW_017852930.1 |
| NT_187680.1 | Chr8|NT_187680.1 | 2 | 2 | Remapped | NT_187680.1 |
| NT_187565.1 | Chr8|NT_187565.1 | 3 | 3 | Remapped | NT_187565.1 |
| NT_187568.1 | Chr8|NT_187568.1 | 2 | 2 | Remapped | NT_187568.1 |
| NT_187571.1 | Chr8|NT_187571.1 | 1 | 1 | Remapped | NT_187571.1 |
| NT_187573.1 | Chr8|NT_187573.1 | 1 | 1 | Remapped | NT_187573.1 |
| NT_187576.1 | Chr8|NT_187576.1 | 6 | 6 | Remapped | NT_187576.1 |
| NT_187654.1 | Chr8|NT_187654.1 | 2 | 2 | Remapped | NT_187654.1 |
| NT_187655.1 | Chr8|NT_187655.1 | 1 | 1 | Remapped | NT_187655.1 |
| NW_018654716.1 | Chr8|NW_018654716.1 | 1 | 1 | Remapped | NW_018654716.1 |
| NW_018654717.1 | Chr8|NW_018654717.1 | 3 | 3 | Remapped | NW_018654717.1 |
| NW_009646201.1 | Chr9|NW_009646201.1 | 2 | 2 | Remapped | NW_009646201.1 |
| NT_187681.1 | Chr11|NT_187681.1 | 6 | 6 | Remapped | NT_187681.1 |
| NT_187656.1 | Chr11|NT_187656.1 | 3 | 3 | Remapped | NT_187656.1 |
| NT_187657.1 | Chr11|NT_187657.1 | 2 | 2 | Remapped | NT_187657.1 |
| NT_187581.1 | Chr11|NT_187581.1 | 1 | 1 | Remapped | NT_187581.1 |
| NT_187584.1 | Chr11|NT_187584.1 | 2 | 2 | Remapped | NT_187584.1 |
| NT_187586.1 | Chr11|NT_187586.1 | 1 | 1 | Remapped | NT_187586.1 |
| NW_015148966.1 | Chr11|NW_015148966.1 | 4 | 4 | Remapped | NW_015148966.1 |
| NW_003315940.1 | Chr12|NW_003315940.1 | 1 | 1 | Remapped | NW_003315940.1 |
| NW_003571050.1 | Chr12|NW_003571050.1 | 1 | 1 | Remapped | NW_003571050.1 |
| NW_011332696.1 | Chr12|NW_011332696.1 | 1 | 1 | Remapped | NW_011332696.1 |
| NW_018654718.1 | Chr12|NW_018654718.1 | 1 | 1 | Remapped | NW_018654718.1 |
| NW_019805499.1 | Chr12|NW_019805499.1 | 1 | 1 | Remapped | NW_019805499.1 |
| NT_187592.1 | Chr13|NT_187592.1 | 1 | 1 | Remapped | NT_187592.1 |
| NT_187594.1 | Chr13|NT_187594.1 | 1 | 1 | Remapped | NT_187594.1 |
| NW_009646205.1 | Chr13|NW_009646205.1 | 1 | 1 | Remapped | NW_009646205.1 |
| NW_011332698.1 | Chr13|NW_011332698.1 | 3 | 3 | Remapped | NW_011332698.1 |
| NW_011332699.1 | Chr13|NW_011332699.1 | 1 | 1 | Remapped | NW_011332699.1 |
| NW_013171811.1 | Chr13|NW_013171811.1 | 1 | 1 | Remapped | NW_013171811.1 |
| NT_187600.1 | Chr14|NT_187600.1 | 4 | 4 | Remapped | NT_187600.1 |
| NT_187601.1 | Chr14|NT_187601.1 | 2 | 2 | Remapped | NT_187601.1 |
| NW_018654722.1 | Chr14|NW_018654722.1 | 2 | 2 | Remapped | NW_018654722.1 |
| NT_187660.1 | Chr15|NT_187660.1 | 3 | 3 | Remapped | NT_187660.1 |
| NW_011332701.1 | Chr15|NW_011332701.1 | 3 | 3 | Remapped | NW_011332701.1 |
| NT_187609.1 | Chr16|NT_187609.1 | 1 | 1 | Remapped | NT_187609.1 |
| NW_019805500.1 | Chr16|NW_019805500.1 | 1 | 1 | Remapped | NW_019805500.1 |
| NT_187661.1 | Chr17|NT_187661.1 | 1 | 1 | Remapped | NT_187661.1 |
| NT_187662.1 | Chr17|NT_187662.1 | 3 | 3 | Remapped | NT_187662.1 |
| NT_187664.1 | Chr17|NT_187664.1 | 1 | 1 | Remapped | NT_187664.1 |
| NW_003871093.1 | Chr17|NW_003871093.1 | 1 | 1 | Remapped | NW_003871093.1 |
| NT_187611.1 | Chr17|NT_187611.1 | 2 | 2 | Remapped | NT_187611.1 |
| NT_187612.1 | Chr17|NT_187612.1 | 1 | 1 | Remapped | NT_187612.1 |
| NT_187613.1 | Chr17|NT_187613.1 | 2 | 2 | Remapped | NT_187613.1 |
| NT_187614.1 | Chr17|NT_187614.1 | 3 | 3 | Remapped | NT_187614.1 |
| NW_003315952.3 | Chr17|NW_003315952.3 | 3 | 3 | Remapped | NW_003315952.3 |
| NW_003315954.1 | Chr17|NW_003315954.1 | 1 | 1 | Remapped | NW_003315954.1 |
| NW_017363817.1 | Chr17|NW_017363817.1 | 1 | 1 | Remapped | NW_017363817.1 |
| NW_017363819.1 | Chr17|NW_017363819.1 | 2 | 2 | Remapped | NW_017363819.1 |
| NT_187665.1 | Chr18|NT_187665.1 | 1 | 1 | Remapped | NT_187665.1 |
| NT_187666.1 | Chr18|NT_187666.1 | 1 | 1 | Remapped | NT_187666.1 |
| NW_003315958.1 | Chr18|NW_003315958.1 | 1 | 1 | Remapped | NW_003315958.1 |
| NW_003315959.1 | Chr18|NW_003315959.1 | 1 | 1 | Remapped | NW_003315959.1 |
| NW_003315961.1 | Chr18|NW_003315961.1 | 1 | 1 | Remapped | NW_003315961.1 |
| NT_187693.1 | Chr19|NT_187693.1 | 5 | 5 | Remapped | NT_187693.1 |
| NW_003571061.2 | Chr19|NW_003571061.2 | 2 | 2 | Remapped | NW_003571061.2 |
| NW_003571057.2 | Chr19|NW_003571057.2 | 1 | 1 | Remapped | NW_003571057.2 |
| NW_003571058.2 | Chr19|NW_003571058.2 | 1 | 1 | Remapped | NW_003571058.2 |
| NW_003571059.2 | Chr19|NW_003571059.2 | 1 | 1 | Remapped | NW_003571059.2 |
| NW_003571060.1 | Chr19|NW_003571060.1 | 4 | 4 | Remapped | NW_003571060.1 |
| NW_003571056.2 | Chr19|NW_003571056.2 | 1 | 1 | Remapped | NW_003571056.2 |
| NW_003571055.2 | Chr19|NW_003571055.2 | 3 | 3 | Remapped | NW_003571055.2 |
| NT_187621.1 | Chr19|NT_187621.1 | 1 | 1 | Remapped | NT_187621.1 |
| NT_187622.1 | Chr19|NT_187622.1 | 2 | 2 | Remapped | NT_187622.1 |
| NW_003315964.2 | Chr19|NW_003315964.2 | 1 | 1 | Remapped | NW_003315964.2 |
| NW_003571054.1 | Chr19|NW_003571054.1 | 4 | 4 | Remapped | NW_003571054.1 |
| NW_009646206.1 | Chr19|NW_009646206.1 | 1 | 1 | Remapped | NW_009646206.1 |
| NT_187624.1 | Chr20|NT_187624.1 | 1 | 1 | Remapped | NT_187624.1 |
| NT_187626.1 | Chr21|NT_187626.1 | 1 | 1 | Remapped | NT_187626.1 |
| NT_187628.1 | Chr21|NT_187628.1 | 3 | 3 | Remapped | NT_187628.1 |
| NW_015148969.1 | Chr22|NW_015148969.1 | 2 | 2 | Remapped | NW_015148969.1 |
| NT_187630.1 | Chr22|NT_187630.1 | 1 | 1 | Remapped | NT_187630.1 |
| NT_187633.1 | Chr22|NT_187633.1 | 5 | 5 | Remapped | NT_187633.1 |
| NW_003315972.2 | Chr22|NW_003315972.2 | 2 | 2 | Remapped | NW_003315972.2 |
| Sequence ID | Chr | Number of Variant Regions | Number of Variant Calls | Placement type | Link to graphical display |
|---|---|---|---|---|---|
| NC_000001.10 | Chr1 | 183 | 183 | Remapped | NC_000001.10 |
| NC_000002.11 | Chr2 | 173 | 173 | Remapped | NC_000002.11 |
| NC_000003.11 | Chr3 | 160 | 160 | Remapped | NC_000003.11 |
| NC_000004.11 | Chr4 | 164 | 164 | Remapped | NC_000004.11 |
| NC_000005.9 | Chr5 | 143 | 143 | Remapped | NC_000005.9 |
| NC_000006.11 | Chr6 | 194 | 194 | Remapped | NC_000006.11 |
| NC_000007.13 | Chr7 | 144 | 144 | Remapped | NC_000007.13 |
| NC_000008.10 | Chr8 | 141 | 141 | Remapped | NC_000008.10 |
| NC_000009.11 | Chr9 | 105 | 105 | Remapped | NC_000009.11 |
| NC_000010.10 | Chr10 | 121 | 121 | Remapped | NC_000010.10 |
| NC_000011.9 | Chr11 | 130 | 130 | Remapped | NC_000011.9 |
| NC_000012.11 | Chr12 | 117 | 117 | Remapped | NC_000012.11 |
| NC_000013.10 | Chr13 | 91 | 91 | Remapped | NC_000013.10 |
| NC_000014.8 | Chr14 | 76 | 76 | Remapped | NC_000014.8 |
| NC_000015.9 | Chr15 | 65 | 65 | Remapped | NC_000015.9 |
| NC_000016.9 | Chr16 | 86 | 86 | Remapped | NC_000016.9 |
| NC_000017.10 | Chr17 | 101 | 101 | Remapped | NC_000017.10 |
| NC_000018.9 | Chr18 | 66 | 66 | Remapped | NC_000018.9 |
| NC_000019.9 | Chr19 | 95 | 95 | Remapped | NC_000019.9 |
| NC_000020.10 | Chr20 | 67 | 67 | Remapped | NC_000020.10 |
| NC_000021.8 | Chr21 | 39 | 39 | Remapped | NC_000021.8 |
| NC_000022.10 | Chr22 | 57 | 57 | Remapped | NC_000022.10 |
| NC_000023.10 | ChrX | 105 | 105 | Remapped | NC_000023.10 |
| NW_003315907.1 | Chr1|NW_003315907.1 | 1 | 1 | Remapped | NW_003315907.1 |
| NW_003871055.3 | Chr1|NW_003871055.3 | 4 | 4 | Remapped | NW_003871055.3 |
| NW_003871056.3 | Chr1|NW_003871056.3 | 1 | 1 | Remapped | NW_003871056.3 |
| NW_003571032.1 | Chr2|NW_003571032.1 | 3 | 3 | Remapped | NW_003571032.1 |
| NW_004504299.1 | Chr2|NW_004504299.1 | 1 | 1 | Remapped | NW_004504299.1 |
| NW_003315915.1 | Chr4|NW_003315915.1 | 2 | 2 | Remapped | NW_003315915.1 |
| NW_003571034.1 | Chr4|NW_003571034.1 | 2 | 2 | Remapped | NW_003571034.1 |
| NW_003571035.1 | Chr4|NW_003571035.1 | 1 | 1 | Remapped | NW_003571035.1 |
| NT_167244.1 | Chr6|NT_167244.1 | 1 | 1 | Remapped | NT_167244.1 |
| NT_167245.1 | Chr6|NT_167245.1 | 4 | 4 | Remapped | NT_167245.1 |
| NT_167246.1 | Chr6|NT_167246.1 | 16 | 16 | Remapped | NT_167246.1 |
| NT_167247.1 | Chr6|NT_167247.1 | 15 | 15 | Remapped | NT_167247.1 |
| NT_167249.1 | Chr6|NT_167249.1 | 11 | 11 | Remapped | NT_167249.1 |
| NW_004504300.1 | Chr6|NW_004504300.1 | 2 | 2 | Remapped | NW_004504300.1 |
| NW_003571040.1 | Chr7|NW_003571040.1 | 1 | 1 | Remapped | NW_003571040.1 |
| NW_003871064.1 | Chr7|NW_003871064.1 | 7 | 7 | Remapped | NW_003871064.1 |
| NW_003315923.1 | Chr8|NW_003315923.1 | 2 | 2 | Remapped | NW_003315923.1 |
| NW_003315924.1 | Chr8|NW_003315924.1 | 1 | 1 | Remapped | NW_003315924.1 |
| NW_003571042.1 | Chr8|NW_003571042.1 | 4 | 4 | Remapped | NW_003571042.1 |
| NW_004775431.1 | Chr8|NW_004775431.1 | 1 | 1 | Remapped | NW_004775431.1 |
| NW_003315925.1 | Chr9|NW_003315925.1 | 1 | 1 | Remapped | NW_003315925.1 |
| NW_004070868.1 | Chr9|NW_004070868.1 | 1 | 1 | Remapped | NW_004070868.1 |
| NW_003871068.1 | Chr10|NW_003871068.1 | 1 | 1 | Remapped | NW_003871068.1 |
| NW_003571045.1 | Chr11|NW_003571045.1 | 2 | 2 | Remapped | NW_003571045.1 |
| NW_003871081.1 | Chr11|NW_003871081.1 | 1 | 1 | Remapped | NW_003871081.1 |
| NW_003315937.1 | Chr12|NW_003315937.1 | 1 | 1 | Remapped | NW_003315937.1 |
| NW_003315940.1 | Chr12|NW_003315940.1 | 1 | 1 | Remapped | NW_003315940.1 |
| NW_003571050.1 | Chr12|NW_003571050.1 | 1 | 1 | Remapped | NW_003571050.1 |
| NW_003871083.2 | Chr12|NW_003871083.2 | 4 | 4 | Remapped | NW_003871083.2 |
| NW_004166863.1 | Chr14|NW_004166863.1 | 4 | 4 | Remapped | NW_004166863.1 |
| NW_003871084.1 | Chr15|NW_003871084.1 | 2 | 2 | Remapped | NW_003871084.1 |
| NW_003315950.2 | Chr17|NW_003315950.2 | 5 | 5 | Remapped | NW_003315950.2 |
| NW_003315954.1 | Chr17|NW_003315954.1 | 1 | 1 | Remapped | NW_003315954.1 |
| NW_003871089.1 | Chr17|NW_003871089.1 | 1 | 1 | Remapped | NW_003871089.1 |
| NW_003871090.1 | Chr17|NW_003871090.1 | 2 | 2 | Remapped | NW_003871090.1 |
| NW_003871093.1 | Chr17|NW_003871093.1 | 1 | 1 | Remapped | NW_003871093.1 |
| NW_004070872.2 | Chr17|NW_004070872.2 | 4 | 4 | Remapped | NW_004070872.2 |
| NW_003315958.1 | Chr18|NW_003315958.1 | 1 | 1 | Remapped | NW_003315958.1 |
| NW_003315959.1 | Chr18|NW_003315959.1 | 1 | 1 | Remapped | NW_003315959.1 |
| NW_003315961.1 | Chr18|NW_003315961.1 | 1 | 1 | Remapped | NW_003315961.1 |
| NW_003315964.2 | Chr19|NW_003315964.2 | 1 | 1 | Remapped | NW_003315964.2 |
| NW_004166865.1 | Chr19|NW_004166865.1 | 1 | 1 | Remapped | NW_004166865.1 |
| NW_003571063.2 | Chr20|NW_003571063.2 | 2 | 2 | Remapped | NW_003571063.2 |
| NW_003315972.1 | Chr22|NW_003315972.1 | 2 | 2 | Remapped | NW_003315972.1 |
| NW_003871096.1 | Chr22|NW_003871096.1 | 1 | 1 | Remapped | NW_003871096.1 |
| NW_004070873.1 | Chr22|NW_004070873.1 | 1 | 1 | Remapped | NW_004070873.1 |
| NW_003571064.2 | ChrX|NW_003571064.2 | 1 | 1 | Remapped | NW_003571064.2 |
| NW_003871101.3 | ChrX|NW_003871101.3 | 2 | 2 | Remapped | NW_003871101.3 |
| NW_003871103.3 | ChrX|NW_003871103.3 | 3 | 3 | Remapped | NW_003871103.3 |
| NW_004070879.1 | ChrX|NW_004070879.1 | 2 | 2 | Remapped | NW_004070879.1 |
| NW_004070880.2 | ChrX|NW_004070880.2 | 5 | 5 | Remapped | NW_004070880.2 |
| NW_004070887.1 | ChrX|NW_004070887.1 | 1 | 1 | Remapped | NW_004070887.1 |
| NW_004070888.1 | ChrX|NW_004070888.1 | 2 | 2 | Remapped | NW_004070888.1 |
| NW_004070889.1 | ChrX|NW_004070889.1 | 1 | 1 | Remapped | NW_004070889.1 |
| NW_004070890.2 | ChrX|NW_004070890.2 | 8 | 8 | Remapped | NW_004070890.2 |
| NW_004070891.1 | ChrX|NW_004070891.1 | 4 | 4 | Remapped | NW_004070891.1 |
| NW_004166866.1 | ChrX|NW_004166866.1 | 3 | 3 | Remapped | NW_004166866.1 |
| Sequence ID | Chr | Number of Variant Regions | Number of Variant Calls | Placement type | Link to graphical display |
|---|---|---|---|---|---|
| NC_000001.9 | Chr1 | 183 | 183 | Submitted | NC_000001.9 |
| NC_000002.10 | Chr2 | 173 | 173 | Submitted | NC_000002.10 |
| NC_000003.10 | Chr3 | 160 | 160 | Submitted | NC_000003.10 |
| NC_000004.10 | Chr4 | 165 | 165 | Submitted | NC_000004.10 |
| NC_000005.8 | Chr5 | 143 | 143 | Submitted | NC_000005.8 |
| NC_000006.10 | Chr6 | 194 | 194 | Submitted | NC_000006.10 |
| NC_000007.12 | Chr7 | 145 | 145 | Submitted | NC_000007.12 |
| NC_000008.9 | Chr8 | 143 | 143 | Submitted | NC_000008.9 |
| NC_000009.10 | Chr9 | 105 | 105 | Submitted | NC_000009.10 |
| NC_000010.9 | Chr10 | 122 | 122 | Submitted | NC_000010.9 |
| NC_000011.8 | Chr11 | 130 | 130 | Submitted | NC_000011.8 |
| NC_000012.10 | Chr12 | 117 | 117 | Submitted | NC_000012.10 |
| NC_000013.9 | Chr13 | 91 | 91 | Submitted | NC_000013.9 |
| NC_000014.7 | Chr14 | 76 | 76 | Submitted | NC_000014.7 |
| NC_000015.8 | Chr15 | 65 | 65 | Submitted | NC_000015.8 |
| NC_000016.8 | Chr16 | 86 | 86 | Submitted | NC_000016.8 |
| NC_000017.9 | Chr17 | 108 | 108 | Submitted | NC_000017.9 |
| NC_000018.8 | Chr18 | 66 | 66 | Submitted | NC_000018.8 |
| NC_000019.8 | Chr19 | 96 | 96 | Submitted | NC_000019.8 |
| NC_000020.9 | Chr20 | 67 | 67 | Submitted | NC_000020.9 |
| NC_000021.7 | Chr21 | 39 | 39 | Submitted | NC_000021.7 |
| NC_000022.9 | Chr22 | 58 | 58 | Submitted | NC_000022.9 |
| NC_000023.9 | ChrX | 105 | 105 | Submitted | NC_000023.9 |
| 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_000001.9 | Chr1 | 183 | 178 | 1 | 0 | 0 | 4 | 183 | 178 | 1 | 0 | 0 | 4 |
| NC_000002.10 | Chr2 | 173 | 168 | 1 | 0 | 0 | 4 | 173 | 168 | 1 | 0 | 0 | 4 |
| NC_000003.10 | Chr3 | 160 | 158 | 2 | 0 | 0 | 0 | 160 | 158 | 2 | 0 | 0 | 0 |
| NC_000004.10 | Chr4 | 165 | 160 | 0 | 1 | 0 | 4 | 165 | 160 | 0 | 1 | 0 | 4 |
| NC_000005.8 | Chr5 | 143 | 143 | 0 | 0 | 0 | 0 | 143 | 143 | 0 | 0 | 0 | 0 |
| NC_000006.10 | Chr6 | 194 | 167 | 0 | 1 | 0 | 26 | 194 | 167 | 0 | 1 | 0 | 26 |
| NC_000007.12 | Chr7 | 145 | 134 | 2 | 2 | 0 | 7 | 145 | 134 | 2 | 2 | 0 | 7 |
| NC_000008.9 | Chr8 | 143 | 137 | 0 | 0 | 0 | 6 | 143 | 137 | 0 | 0 | 0 | 6 |
| NC_000009.10 | Chr9 | 105 | 102 | 0 | 0 | 0 | 3 | 105 | 102 | 0 | 0 | 0 | 3 |
| NC_000010.9 | Chr10 | 122 | 119 | 0 | 1 | 1 | 1 | 122 | 119 | 0 | 1 | 1 | 1 |
| NC_000011.8 | Chr11 | 130 | 126 | 1 | 0 | 0 | 3 | 130 | 126 | 1 | 0 | 0 | 3 |
| NC_000012.10 | Chr12 | 117 | 110 | 0 | 0 | 0 | 7 | 117 | 110 | 0 | 0 | 0 | 7 |
| NC_000013.9 | Chr13 | 91 | 91 | 0 | 0 | 0 | 0 | 91 | 91 | 0 | 0 | 0 | 0 |
| NC_000014.7 | Chr14 | 76 | 70 | 0 | 1 | 0 | 5 | 76 | 70 | 0 | 1 | 0 | 5 |
| NC_000015.8 | Chr15 | 65 | 62 | 0 | 0 | 0 | 3 | 65 | 62 | 0 | 0 | 0 | 3 |
| NC_000016.8 | Chr16 | 86 | 85 | 0 | 1 | 0 | 0 | 86 | 85 | 0 | 1 | 0 | 0 |
| NC_000017.9 | Chr17 | 108 | 98 | 0 | 1 | 1 | 8 | 108 | 98 | 0 | 1 | 1 | 8 |
| NC_000018.8 | Chr18 | 66 | 63 | 0 | 0 | 0 | 3 | 66 | 63 | 0 | 0 | 0 | 3 |
| NC_000019.8 | Chr19 | 96 | 95 | 0 | 0 | 0 | 1 | 96 | 95 | 0 | 0 | 0 | 1 |
| NC_000020.9 | Chr20 | 67 | 65 | 0 | 0 | 0 | 2 | 67 | 65 | 0 | 0 | 0 | 2 |
| NC_000021.7 | Chr21 | 39 | 39 | 0 | 0 | 0 | 0 | 39 | 39 | 0 | 0 | 0 | 0 |
| NC_000022.9 | Chr22 | 58 | 52 | 0 | 2 | 1 | 3 | 58 | 52 | 0 | 2 | 1 | 3 |
| NC_000023.9 | ChrX | 105 | 73 | 0 | 0 | 0 | 32 | 105 | 73 | 0 | 0 | 0 | 32 |
| 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_000001.9 | Chr1 | 183 | 160 | 5 | 2 | 1 | 15 | 183 | 160 | 5 | 2 | 1 | 15 |
| NC_000002.10 | Chr2 | 173 | 159 | 3 | 1 | 2 | 8 | 173 | 159 | 3 | 1 | 2 | 8 |
| NC_000003.10 | Chr3 | 160 | 153 | 2 | 0 | 1 | 4 | 160 | 153 | 2 | 0 | 1 | 4 |
| NC_000004.10 | Chr4 | 165 | 155 | 3 | 1 | 0 | 6 | 165 | 155 | 3 | 1 | 0 | 6 |
| NC_000005.8 | Chr5 | 143 | 137 | 0 | 0 | 0 | 6 | 143 | 137 | 0 | 0 | 0 | 6 |
| NC_000006.10 | Chr6 | 194 | 161 | 2 | 3 | 0 | 28 | 194 | 161 | 2 | 3 | 0 | 28 |
| NC_000007.12 | Chr7 | 145 | 130 | 5 | 3 | 1 | 6 | 145 | 130 | 5 | 3 | 1 | 6 |
| NC_000008.9 | Chr8 | 143 | 124 | 0 | 2 | 0 | 17 | 143 | 124 | 0 | 2 | 0 | 17 |
| NC_000009.10 | Chr9 | 105 | 103 | 0 | 0 | 0 | 2 | 105 | 103 | 0 | 0 | 0 | 2 |
| NC_000010.9 | Chr10 | 122 | 118 | 1 | 1 | 2 | 0 | 122 | 118 | 1 | 1 | 2 | 0 |
| NC_000011.8 | Chr11 | 130 | 117 | 1 | 1 | 1 | 10 | 130 | 117 | 1 | 1 | 1 | 10 |
| NC_000012.10 | Chr12 | 117 | 108 | 2 | 2 | 0 | 5 | 117 | 108 | 2 | 2 | 0 | 5 |
| NC_000013.9 | Chr13 | 91 | 85 | 0 | 0 | 0 | 6 | 91 | 85 | 0 | 0 | 0 | 6 |
| NC_000014.7 | Chr14 | 76 | 62 | 0 | 3 | 3 | 8 | 76 | 62 | 0 | 3 | 3 | 8 |
| NC_000015.8 | Chr15 | 65 | 61 | 1 | 0 | 0 | 3 | 65 | 61 | 1 | 0 | 0 | 3 |
| NC_000016.8 | Chr16 | 86 | 82 | 1 | 1 | 0 | 2 | 86 | 82 | 1 | 1 | 0 | 2 |
| NC_000017.9 | Chr17 | 108 | 85 | 1 | 4 | 3 | 15 | 108 | 85 | 1 | 4 | 3 | 15 |
| NC_000018.8 | Chr18 | 66 | 63 | 0 | 0 | 0 | 3 | 66 | 63 | 0 | 0 | 0 | 3 |
| NC_000019.8 | Chr19 | 96 | 83 | 2 | 0 | 1 | 10 | 96 | 83 | 2 | 0 | 1 | 10 |
| NC_000020.9 | Chr20 | 67 | 64 | 2 | 0 | 0 | 1 | 67 | 64 | 2 | 0 | 0 | 1 |
| NC_000021.7 | Chr21 | 39 | 32 | 1 | 1 | 0 | 5 | 39 | 32 | 1 | 1 | 0 | 5 |
| NC_000022.9 | Chr22 | 58 | 39 | 1 | 5 | 3 | 10 | 58 | 39 | 1 | 5 | 3 | 10 |
| NC_000023.9 | ChrX | 105 | 93 | 7 | 4 | 1 | 0 | 105 | 93 | 7 | 4 | 1 | 0 |
Samplesets
Number of Samplesets: 1
- Name:
- HGMDFN090
- Description:
- Cell line HGMDFN090 from the Progeria Research Foundation.
- Size:
- 1
- Organisms:
- Homo sapiens
- Sampleset Phenotype(s):
- None reported
- Sex:
- Female
| Sample ID | Cell Type | Subject ID | Sex | Ethnicity | Subject Phenotype |
|---|---|---|---|---|---|
| 1 | fibroblast | 1 | Female | European caucasian | Not reported |
Experimental Details
| Experiment ID | Type | Method | Analysis | Platforms | Data | Number of Variant Calls |
|---|---|---|---|---|---|---|
| 1 | Discovery | SNP array | SNP genotyping analysis | Illumina HumanOmni1-Quad BeadChip | GEO | 546 |
| 2 | Discovery | Sequencing | Paired-end mapping | SRA | 2,091 |