Resource
| Id | Histone_ChIP-seq/ENCSR697RIW |
|---|---|
| Type | position_score |
| Version | 0 |
| Summary | Histone_ChIP-seq ENCSR697RIW [biosample_summary="Homo sapiens gastrocnemius medialis tissue male adult (54 years)" and target="H3K9me3"] |
| Description |
status: released biological_replicates: Rep 1, Rep 2 summary: male adult (54 years) output_type: replicated peaks audit_internal_action: Archived analysis {ENCAN927WMS|/analyses/ENCAN927WMS/} has in progress subobject quality standard {encode3-histone-chip|/quality-standards/encode3-histone-chip/} audit_not_compliant: Processed unfiltered alignments file {ENCFF298PEP|/files/ENCFF298PEP/} processed by ChIP-seq ENCODE3 GRCh38 pipeline has 29224825 mapped reads. The minimum ENCODE standard for each replicate in a ChIP-seq experiment targeting H3K9me3-human and investigated as a broad histone mark is 35 million mapped reads. The recommended value is > 45 million, but > 35 million is acceptable. (See {ENCODE ChIP-seq data standards|/data-standards/chip-seq/}) audit_warning: PBC1 (PCR Bottlenecking Coefficient 1, M1/M_distinct) is the ratio of the number of genomic locations where exactly one read maps uniquely (M1) to the number of genomic locations where some reads map (M_distinct). A PBC1 value in the range 0 - 0.5 is severe bottlenecking, 0.5 - 0.8 is moderate bottlenecking, 0.8 - 0.9 is mild bottlenecking, and > 0.9 is no bottlenecking. PBC1 value > 0.9 is recommended, but > 0.8 is acceptable. ENCODE processed alignments file {ENCFF635GWY|/files/ENCFF635GWY/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC1 value of 0.85. audit_warning: PBC2 (PCR Bottlenecking Coefficient 2, M1/M2) is the ratio of the number of genomic locations where exactly one read maps uniquely (M1) to the number of genomic locations where two reads map uniquely (M2). A PBC2 value in the range 0 - 1 is severe bottlenecking, 1 - 3 is moderate bottlenecking, 3 - 10 is mild bottlenecking, > 10 is no bottlenecking. PBC2 value > 10 is recommended, but > 3 is acceptable. ENCODE processed alignments file {ENCFF635GWY|/files/ENCFF635GWY/} processed by ChIP-seq ENCODE3 GRCh38 pipeline was generated from a library with PBC2 value of 6.57. |
| Labels |
|
Scores (1)
| ID | Type | Default annotation | Description | Histogram | Range | Summary |
|---|---|---|---|---|---|---|
| Histone_ChIP-seq_ENCSR697RIW | float |
Histone_ChIP-seq_ENCSR697RIW |
Histone_ChIP-seq ENCSR697RIW [biosample_summary="Homo sapiens gastrocnemius medialis tissue male adult (54 years)" and target="H3K9me3"]
|
 |
[1.22, 11.6] |
|
n counts base pairs; sd is the population standard deviation.
Coverage
| Chromosome | Covered positions | Covered % | Segments |
|---|---|---|---|
| all chromosomes | 37667150 | 1.17% | 46997 |
| chr1 | 2312402 | 0.93% | 3094 |
| chr1_KI270709v1_random | 9881 | 14.78% | 15 |
| chr2 | 2555997 | 1.06% | 3597 |
| chr2_KI270716v1_random | 5574 | 3.62% | 5 |
| chr3 | 2216066 | 1.12% | 3103 |
| chr4 | 2306060 | 1.21% | 3234 |
| chr4_GL000008v2_random | 4385 | 2.09% | 1 |
| chr5 | 2819835 | 1.55% | 3555 |
| chr5_GL000208v1_random | 3601 | 3.89% | 4 |
| chr6 | 1933325 | 1.13% | 2744 |
| chr7 | 2500228 | 1.57% | 3128 |
| chr8 | 1949144 | 1.34% | 2580 |
| chr9 | 1287560 | 0.93% | 1632 |
| chr9_KI270719v1_random | 1815 | 1.03% | 3 |
| chr10 | 1877417 | 1.40% | 2331 |
| chr11 | 1882334 | 1.39% | 2320 |
| chr12 | 1959048 | 1.47% | 2271 |
| chr13 | 856495 | 0.75% | 1329 |
| chr14 | 980528 | 0.92% | 1391 |
| chr14_GL000009v2_random | 710 | 0.35% | 2 |
| chr14_GL000194v1_random | 1392 | 0.73% | 1 |
| chr14_GL000225v1_random | 19676 | 9.32% | 35 |
| chr14_KI270722v1_random | 12314 | 6.35% | 15 |
| chr14_KI270723v1_random | 927 | 2.43% | 2 |
| chr14_KI270725v1_random | 1043 | 0.60% | 1 |
| chr15 | 876215 | 0.86% | 1178 |
| chr16 | 1154172 | 1.28% | 1368 |
| chr17 | 619687 | 0.74% | 785 |
| chr17_GL000205v2_random | 12087 | 6.51% | 18 |
| chr17_KI270729v1_random | 93873 | 33.43% | 85 |
| chr17_KI270730v1_random | 19542 | 17.36% | 20 |
| chr18 | 701854 | 0.87% | 1004 |
| chr19 | 4460464 | 7.61% | 3317 |
| chr20 | 697858 | 1.08% | 940 |
| chr21 | 536738 | 1.15% | 621 |
| chr22 | 318270 | 0.63% | 447 |
| chr22_KI270732v1_random | 4432 | 10.67% | 7 |
| chr22_KI270733v1_random | 7330 | 4.08% | 13 |
| chr22_KI270735v1_random | 8055 | 18.82% | 8 |
| chr22_KI270736v1_random | 81769 | 44.95% | 71 |
| chr22_KI270737v1_random | 460 | 0.44% | 1 |
| chr22_KI270738v1_random | 17397 | 17.51% | 24 |
| chrM | 2657 | 16.04% | 4 |
| chrUn_GL000214v1 | 1357 | 0.99% | 3 |
| chrUn_GL000216v2 | 57456 | 32.53% | 39 |
| chrUn_GL000218v1 | 413 | 0.26% | 1 |
| chrUn_GL000219v1 | 4409 | 2.46% | 3 |
| chrUn_GL000220v1 | 673 | 0.42% | 2 |
| chrUn_GL000224v1 | 1741 | 0.97% | 3 |
| chrUn_KI270337v1 | 476 | 42.46% | 1 |
| chrUn_KI270435v1 | 6487 | 6.98% | 9 |
| chrUn_KI270438v1 | 35534 | 31.58% | 48 |
| chrUn_KI270442v1 | 122356 | 31.21% | 110 |
| chrUn_KI270448v1 | 282 | 3.53% | 1 |
| chrUn_KI270465v1 | 394 | 22.21% | 1 |
| chrUn_KI270466v1 | 873 | 70.80% | 2 |
| chrUn_KI270467v1 | 1513 | 38.60% | 1 |
| chrUn_KI270468v1 | 1531 | 37.76% | 1 |
| chrUn_KI270507v1 | 383 | 7.15% | 1 |
| chrUn_KI270508v1 | 819 | 41.98% | 1 |
| chrUn_KI270509v1 | 383 | 16.52% | 1 |
| chrUn_KI270510v1 | 348 | 14.41% | 1 |
| chrUn_KI270512v1 | 4413 | 19.45% | 5 |
| chrUn_KI270515v1 | 498 | 7.83% | 1 |
| chrUn_KI270517v1 | 1011 | 31.08% | 1 |
| chrUn_KI270519v1 | 18971 | 13.73% | 27 |
| chrUn_KI270538v1 | 4476 | 4.90% | 8 |
| chrUn_KI270580v1 | 554 | 35.67% | 1 |
| chrUn_KI270588v1 | 947 | 15.38% | 2 |
| chrUn_KI270589v1 | 3013 | 6.77% | 1 |
| chrUn_KI270590v1 | 1850 | 39.49% | 2 |
| chrUn_KI270591v1 | 2710 | 46.76% | 2 |
| chrUn_KI270742v1 | 359 | 0.19% | 1 |
| chrUn_KI270743v1 | 308 | 0.15% | 1 |
| chrUn_KI270744v1 | 4054 | 2.41% | 6 |
| chrUn_KI270746v1 | 392 | 0.59% | 1 |
| chrUn_KI270747v1 | 1049 | 0.53% | 1 |
| chrUn_KI270749v1 | 2520 | 1.59% | 4 |
| chrUn_KI270750v1 | 974 | 0.65% | 3 |
| chrUn_KI270751v1 | 4664 | 3.09% | 8 |
| chrUn_KI270756v1 | 4431 | 5.57% | 6 |
| chrUn_KI270757v1 | 9899 | 13.89% | 6 |
| chrX | 199016 | 0.13% | 307 |
| chrY | 52996 | 0.09% | 70 |
| 3282 contigs with no values (122732515 bp) | 0 | 0.00% | 0 |
Segment lengths
| segments | min | max | mean | median | |
|---|---|---|---|---|---|
| segments | 46997 | 200 | 43190 | 801.48 | 594 |
Files
| Filename | Size | md5 |
|---|---|---|
| ENCFF451XSY.bed.gz | 923.55 KB | 281fe3079a636460fa088ee281c9ccd0 |
| ENCFF451XSY.tabix.bed.gz | 471.22 KB | c4827b958deef7fa5f84cc0ce7e4309a |
| ENCFF451XSY.tabix.bed.gz.tbi | 212.88 KB | 67322b030e6ef31eaa7b4ba2068275da |
| genomic_resource.yaml | 3.27 KB | 5357683a5d9f92cedde2fd858539715b |
| statistics/ |