Resource
| Id | hg38/cnv_collections/dbVar |
|---|---|
| Type | fragment_score |
| Version | 0 |
| Summary | dbVar CNV collection |
| Description |
dbVar is a database of genomic structural variations, including deletions, duplications, inversions, and copy number variations (CNVs), collected from human and model organism studies. It provides curated data on variant regions (generalized variation locations) and variant calls (specific observed instances), aiding in understanding genetic diversity and disease associations. Downloaded on 12/16/2024 from https://ftp.ncbi.nlm.nih.gov/pub/dbVar/data/Homo_sapiens/by_study/csv/variants_for_nstd186.csv.gz DataPrep.py converts raw file to GRR format. 'Start' and 'Inner Start" columns are consolidated to "pos_beg"; "End" and "Inner End" columns are consolidated to "pos_end". |
| Labels |
Scores (2)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| deletion_duplication | str |
deletion_duplication |
duplication or deletion
|
 |
copy number variation, mobile element insertion, insertion, mobile element deletion | |
| cnv_name | str |
cnv_name |
Handy name to refer to the CNV.
|
No histogram: Too many unique values 101 for categorical histogram. |
NO DOMAIN |
n counts fragments; sd is the population standard deviation.
Fragments
| Chromosome | Fragments |
|---|---|
| all chromosomes | 191330 |
| chr1 | 13550 |
| chr1|NT_187361.1 | 15 |
| chr1|NT_187514.1 | 5 |
| chr1|NT_187515.1 | 7 |
| chr1|NT_187516.1 | 16 |
| chr1|NT_187517.1 | 13 |
| chr1|NT_187518.1 | 22 |
| chr1|NT_187519.1 | 13 |
| chr1|NT_187520.1 | 1 |
| chr1|NT_187521.1 | 3 |
| chr1|NT_187646.1 | 21 |
| chr1|NW_003315907.2 | 8 |
| chr1|NW_009646194.1 | 6 |
| chr1|NW_009646195.1 | 14 |
| chr1|NW_009646196.1 | 6 |
| chr1|NW_011332687.1 | 8 |
| chr1|NW_011332688.1 | 23 |
| chr1|NW_012132914.1 | 33 |
| chr1|NW_014040925.1 | 8 |
| chr1|NW_014040926.1 | 6 |
| chr1|NW_014040927.1 | 10 |
| chr1|NW_015495298.1 | 14 |
| chr1|NW_017852928.1 | 31 |
| chr1|NW_018654706.1 | 9 |
| chr1|NW_018654707.1 | 18 |
| chr1|NW_018654708.1 | 11 |
| chr1|NW_019805487.1 | 3 |
| chr2 | 14136 |
| chr2|NT_187522.1 | 2 |
| chr2|NT_187523.1 | 33 |
| chr2|NT_187524.1 | 2 |
| chr2|NT_187525.1 | 7 |
| chr2|NT_187526.1 | 4 |
| chr2|NT_187527.1 | 28 |
| chr2|NT_187528.1 | 8 |
| chr2|NT_187529.1 | 30 |
| chr2|NT_187530.1 | 1 |
| chr2|NT_187531.1 | 2 |
| chr2|NT_187647.1 | 33 |
| chr2|NT_187648.1 | 3 |
| chr2|NW_003315908.1 | 9 |
| chr2|NW_011332689.1 | 11 |
| chr2|NW_011332690.1 | 10 |
| chr2|NW_012132915.1 | 30 |
| chr2|NW_015495299.1 | 25 |
| chr2|NW_018654709.1 | 2 |
| chr2|NW_018654710.1 | 8 |
| chr3 | 11424 |
| chr3|NT_187532.1 | 26 |
| chr3|NT_187533.1 | 1 |
| chr3|NT_187534.1 | 1 |
| chr3|NT_187535.1 | 5 |
| chr3|NT_187536.1 | 18 |
| chr3|NT_187537.1 | 20 |
| chr3|NT_187538.1 | 4 |
| chr3|NT_187539.1 | 17 |
| chr3|NT_187649.1 | 34 |
| chr3|NT_187678.1 | 33 |
| chr3|NT_187688.1 | 34 |
| chr3|NT_187689.1 | 35 |
| chr3|NT_187690.1 | 34 |
| chr3|NT_187691.1 | 34 |
| chr3|NW_003315913.1 | 1 |
| chr3|NW_003871060.2 | 5 |
| chr3|NW_009646197.1 | 7 |
| chr3|NW_011332691.1 | 20 |
| chr3|NW_012132916.1 | 11 |
| chr3|NW_017363813.1 | 8 |
| chr3|NW_019805488.1 | 4 |
| chr3|NW_019805489.1 | 9 |
| chr3|NW_019805490.1 | 4 |
| chr3|NW_019805491.1 | 1 |
| chr3|NW_019805492.1 | 3 |
| chr4 | 12274 |
| chr4|NT_113793.3 | 10 |
| chr4|NT_187540.1 | 8 |
| chr4|NT_187541.1 | 2 |
| chr4|NT_187542.1 | 8 |
| chr4|NT_187543.1 | 11 |
| chr4|NT_187544.1 | 6 |
| chr4|NT_187545.1 | 12 |
| chr4|NT_187650.1 | 14 |
| chr4|NT_187679.1 | 33 |
| chr4|NW_003315914.1 | 1 |
| chr4|NW_003315915.1 | 19 |
| chr4|NW_013171799.1 | 1 |
| chr4|NW_013171800.1 | 8 |
| chr4|NW_013171801.1 | 5 |
| chr4|NW_017363814.1 | 10 |
| chr5 | 11042 |
| chr5|NT_187546.1 | 16 |
| chr5|NT_187547.1 | 7 |
| chr5|NT_187548.1 | 27 |
| chr5|NT_187549.1 | 4 |
| chr5|NT_187550.1 | 16 |
| chr5|NT_187551.1 | 2 |
| chr5|NT_187651.1 | 76 |
| chr5|NT_187652.1 | 18 |
| chr5|NW_003315917.2 | 78 |
| chr5|NW_003315918.1 | 1 |
| chr5|NW_003315919.1 | 4 |
| chr5|NW_003315920.1 | 4 |
| chr5|NW_003571036.1 | 3 |
| chr5|NW_009646199.1 | 7 |
| chr5|NW_016107297.1 | 17 |
| chr5|NW_016107298.1 | 28 |
| chr5|NW_018654712.1 | 7 |
| chr6 | 11273 |
| chr6|NT_187552.1 | 13 |
| chr6|NT_187553.1 | 27 |
| chr6|NT_187554.1 | 2 |
| chr6|NT_187555.1 | 11 |
| chr6|NT_187556.1 | 18 |
| chr6|NT_187692.1 | 4 |
| chr6|NW_003315921.1 | 6 |
| chr6|NW_004166862.2 | 18 |
| chr6|NW_009646200.1 | 18 |
| chr6|NW_012132918.1 | 10 |
| chr6|NW_013171802.1 | 4 |
| chr6|NW_013171803.1 | 4 |
| chr6|NW_017363815.1 | 1 |
| chr6|NW_018654713.1 | 8 |
| chr7 | 11354 |
| chr7|NT_187558.1 | 25 |
| chr7|NT_187559.1 | 10 |
| chr7|NT_187560.1 | 39 |
| chr7|NT_187561.1 | 23 |
| chr7|NT_187562.1 | 71 |
| chr7|NT_187563.1 | 21 |
| chr7|NT_187564.1 | 16 |
| chr7|NT_187653.1 | 27 |
| chr7|NW_003315922.2 | 2 |
| chr7|NW_012132919.1 | 5 |
| chr7|NW_017852929.1 | 3 |
| chr7|NW_017852930.1 | 9 |
| chr7|NW_018654714.1 | 19 |
| chr7|NW_018654715.1 | 8 |
| chr7|NW_019805493.1 | 6 |
| chr8 | 9221 |
| chr8|NT_187565.1 | 32 |
| chr8|NT_187566.1 | 11 |
| chr8|NT_187567.1 | 22 |
| chr8|NT_187568.1 | 19 |
| chr8|NT_187569.1 | 6 |
| chr8|NT_187570.1 | 27 |
| chr8|NT_187571.1 | 13 |
| chr8|NT_187572.1 | 5 |
| chr8|NT_187573.1 | 13 |
| chr8|NT_187574.1 | 10 |
| chr8|NT_187575.1 | 2 |
| chr8|NT_187576.1 | 101 |
| chr8|NT_187577.1 | 24 |
| chr8|NT_187654.1 | 29 |
| chr8|NT_187655.1 | 10 |
| chr8|NT_187680.1 | 26 |
| chr8|NW_017852931.1 | 4 |
| chr8|NW_017852932.1 | 4 |
| chr8|NW_018654716.1 | 14 |
| chr8|NW_018654717.1 | 239 |
| chr8|NW_019805494.1 | 3 |
| chr9 | 8578 |
| chr9|NT_187578.1 | 7 |
| chr9|NW_003315929.1 | 2 |
| chr9|NW_003315930.1 | 6 |
| chr9|NW_003315931.1 | 4 |
| chr9|NW_009646201.1 | 24 |
| chr9|NW_013171804.1 | 7 |
| chr9|NW_013171805.1 | 9 |
| chr10 | 8550 |
| chr10|NT_187579.1 | 15 |
| chr10|NT_187580.1 | 2 |
| chr10|NW_003315934.1 | 21 |
| chr10|NW_003315935.1 | 8 |
| chr10|NW_009646202.1 | 9 |
| chr10|NW_013171806.1 | 24 |
| chr10|NW_013171807.1 | 8 |
| chr11 | 9331 |
| chr11|NT_187581.1 | 20 |
| chr11|NT_187582.1 | 2 |
| chr11|NT_187583.1 | 15 |
| chr11|NT_187584.1 | 19 |
| chr11|NT_187585.1 | 7 |
| chr11|NT_187586.1 | 21 |
| chr11|NT_187656.1 | 6 |
| chr11|NT_187657.1 | 8 |
| chr11|NT_187681.1 | 20 |
| chr11|NW_003315936.1 | 2 |
| chr11|NW_003871073.1 | 6 |
| chr11|NW_003871074.1 | 2 |
| chr11|NW_009646203.1 | 11 |
| chr11|NW_011332695.1 | 15 |
| chr11|NW_013171808.1 | 2 |
| chr11|NW_015148966.1 | 24 |
| chr11|NW_017363816.1 | 1 |
| chr11|NW_019805495.1 | 18 |
| chr11|NW_019805496.1 | 14 |
| chr11|NW_019805497.1 | 16 |
| chr11|NW_019805498.1 | 5 |
| chr12 | 8560 |
| chr12|NT_187587.1 | 16 |
| chr12|NT_187588.1 | 3 |
| chr12|NT_187589.1 | 4 |
| chr12|NT_187590.1 | 6 |
| chr12|NT_187591.1 | 6 |
| chr12|NT_187658.1 | 33 |
| chr12|NW_003315938.1 | 2 |
| chr12|NW_003315939.2 | 4 |
| chr12|NW_003315940.1 | 14 |
| chr12|NW_003315941.1 | 11 |
| chr12|NW_003315942.2 | 1 |
| chr12|NW_003571049.1 | 11 |
| chr12|NW_003571050.1 | 28 |
| chr12|NW_009646204.1 | 10 |
| chr12|NW_011332696.1 | 31 |
| chr12|NW_013171809.1 | 8 |
| chr12|NW_015148967.1 | 12 |
| chr12|NW_018654718.1 | 40 |
| chr12|NW_018654719.1 | 8 |
| chr12|NW_018654720.1 | 6 |
| chr12|NW_019805499.1 | 12 |
| chr13 | 6055 |
| chr13|NT_187592.1 | 19 |
| chr13|NT_187593.1 | 3 |
| chr13|NT_187594.1 | 34 |
| chr13|NT_187595.1 | 7 |
| chr13|NT_187596.1 | 7 |
| chr13|NT_187597.1 | 1 |
| chr13|NW_011332698.1 | 35 |
| chr13|NW_011332699.1 | 5 |
| chr13|NW_011332700.1 | 8 |
| chr13|NW_013171810.1 | 2 |
| chr13|NW_013171811.1 | 7 |
| chr14 | 5160 |
| chr14|NT_113796.3 | 2 |
| chr14|NT_187598.1 | 10 |
| chr14|NT_187599.1 | 4 |
| chr14|NT_187600.1 | 112 |
| chr14|NT_187601.1 | 42 |
| chr14|NW_018654721.1 | 4 |
| chr14|NW_018654722.1 | 46 |
| chr15 | 5420 |
| chr15|NT_187382.1 | 3 |
| chr15|NT_187602.1 | 5 |
| chr15|NT_187603.1 | 14 |
| chr15|NT_187604.1 | 29 |
| chr15|NT_187605.1 | 18 |
| chr15|NT_187606.1 | 21 |
| chr15|NT_187659.1 | 18 |
| chr15|NT_187660.1 | 139 |
| chr15|NW_003315943.1 | 34 |
| chr15|NW_003315944.2 | 8 |
| chr15|NW_011332701.1 | 162 |
| chr16 | 5781 |
| chr16|NT_187607.1 | 135 |
| chr16|NT_187608.1 | 4 |
| chr16|NT_187609.1 | 8 |
| chr16|NT_187610.1 | 12 |
| chr16|NW_003315945.1 | 4 |
| chr16|NW_003315946.1 | 3 |
| chr16|NW_012132921.1 | 4 |
| chr16|NW_013171812.1 | 2 |
| chr16|NW_013171813.1 | 2 |
| chr16|NW_017852933.1 | 31 |
| chr16|NW_018654723.1 | 4 |
| chr16|NW_019805500.1 | 17 |
| chr17 | 5905 |
| chr17|NT_167251.2 | 5 |
| chr17|NT_187611.1 | 24 |
| chr17|NT_187612.1 | 37 |
| chr17|NT_187613.1 | 41 |
| chr17|NT_187614.1 | 127 |
| chr17|NT_187615.1 | 3 |
| chr17|NT_187616.1 | 2 |
| chr17|NT_187661.1 | 22 |
| chr17|NT_187662.1 | 25 |
| chr17|NT_187663.1 | 109 |
| chr17|NT_187664.1 | 10 |
| chr17|NW_003315952.3 | 30 |
| chr17|NW_003315953.2 | 10 |
| chr17|NW_003315954.1 | 11 |
| chr17|NW_003315955.1 | 6 |
| chr17|NW_003871091.1 | 19 |
| chr17|NW_003871092.1 | 8 |
| chr17|NW_003871093.1 | 13 |
| chr17|NW_016107299.1 | 9 |
| chr17|NW_017363817.1 | 23 |
| chr17|NW_017363818.1 | 7 |
| chr17|NW_017363819.1 | 27 |
| chr17|NW_019805501.1 | 2 |
| chr18 | 4574 |
| chr18|NT_187617.1 | 17 |
| chr18|NT_187618.1 | 2 |
| chr18|NT_187665.1 | 22 |
| chr18|NT_187666.1 | 13 |
| chr18|NW_003315956.1 | 15 |
| chr18|NW_003315957.1 | 1 |
| chr18|NW_003315958.1 | 9 |
| chr18|NW_003315959.1 | 11 |
| chr18|NW_003315960.1 | 3 |
| chr18|NW_003315961.1 | 12 |
| chr18|NW_013171814.1 | 6 |
| chr18|NW_014040928.1 | 7 |
| chr18|NW_018654724.1 | 4 |
| chr18|NW_019805503.1 | 10 |
| chr19 | 5959 |
| chr19|NT_187619.1 | 2 |
| chr19|NT_187620.1 | 7 |
| chr19|NT_187621.1 | 8 |
| chr19|NT_187622.1 | 12 |
| chr19|NT_187693.1 | 118 |
| chr19|NW_003315962.1 | 21 |
| chr19|NW_003315963.1 | 9 |
| chr19|NW_003315964.2 | 10 |
| chr19|NW_003315965.1 | 11 |
| chr19|NW_003571054.1 | 66 |
| chr19|NW_003571055.2 | 56 |
| chr19|NW_003571056.2 | 41 |
| chr19|NW_003571057.2 | 41 |
| chr19|NW_003571058.2 | 41 |
| chr19|NW_003571059.2 | 41 |
| chr19|NW_003571060.1 | 66 |
| chr19|NW_003571061.2 | 58 |
| chr19|NW_009646206.1 | 23 |
| chr19|NW_014040929.1 | 11 |
| chr20 | 3738 |
| chr20|NT_187623.1 | 5 |
| chr20|NT_187624.1 | 13 |
| chr20|NT_187625.1 | 6 |
| chr20|NW_003315966.2 | 9 |
| chr21 | 2456 |
| chr21|NT_187626.1 | 13 |
| chr21|NT_187627.1 | 3 |
| chr21|NT_187628.1 | 6 |
| chr21|NW_003315967.2 | 1 |
| chr21|NW_003315968.2 | 9 |
| chr22 | 3273 |
| chr22|NT_187629.1 | 9 |
| chr22|NT_187630.1 | 13 |
| chr22|NT_187631.1 | 3 |
| chr22|NT_187632.1 | 9 |
| chr22|NT_187633.1 | 54 |
| chr22|NT_187682.1 | 8 |
| chr22|NW_003315972.2 | 4 |
| chr22|NW_015148969.1 | 3 |
| chrUnplaced|NT_187513.1 | 1 |
| chrX | 7153 |
| chrX|NT_187634.1 | 78 |
| chrX|NT_187635.1 | 4 |
| chrX|NT_187667.1 | 78 |
| chrX|NW_017363820.1 | 12 |
| chrY | 754 |
| chrY|NW_009646209.1 | 6 |
| chrY|NW_018654726.1 | 1 |
Fragment lengths
| fragments | min | max | mean | median | |
|---|---|---|---|---|---|
| fragments | 191330 | 1 | 45795015 | 7478.77 | 340 |
×
Files
| Filename | Size | md5 |
|---|---|---|
| DataPrep.py | 1.17 KB | 6486f4a94df34fb5acd40481075dec2d |
| genomic_resource.yaml | 1.61 KB | 1b8fb47226c5af841f7036f1af56fc48 |
| prepped_variants_for_nstd186.csv | 19.94 MB | 923ff1361a06190174962fd401c11dbe |
| prepped_variants_for_nstd186.sorted.tsv.gz | 2.06 MB | 8ba081dda5b7110fb8a894248dfda685 |
| prepped_variants_for_nstd186.sorted.tsv.gz.tbi | 523.01 KB | 1de968994c82c75551969934a970ef67 |
| prepped_variants_for_nstd186.tsv.gz | 2.11 MB | 15ef926b2d3e7316ca167a732e633cf1 |
| variants_for_nstd186.csv | 21.23 MB | fce0401ee70a29a0dcaebe4cb535e3ca |
| statistics/ |