Data Import

Loading

This section presents a summary of the data import step.

Data type Bisulfite sequencing data set
Data source /TL/deep/fhgfs/projects/epigenomicLandscape/hematopoiesis/03_blueprint_pub/data/proc/GRCh38/methyl/meth_calls/release/mergedStrands
Genome assembly used hg38
Number of samples 81
Number of sites 28571135
Detection p-values absent
coverage information is present

Sample Annotation

The loaded dataset includes a table of sample annotations describing the following traits:

No. Trait Missing Values Type
1 sampleName identifiers or text
2 sampleGroup categories or text
3 bedFile identifiers or text
4 experiment identifiers or text
5 cellTypeShort categories or text
6 experimentType all identical
7 sample identifiers or text
8 origin categories or text
9 experimentOriginal identifiers or text
10 EXPERIMENT_ID identifiers or text
11 SAMPLE_ID identifiers or text
12 DONOR_ID categories or text
13 CENTER_NAME all identical
14 FIRST_SUBMISSION_DATE categories or text
15 SAMPLE_NAME identifiers or text
16 DISEASE categories or text
17 DISEASE_ONTOLOGY_URI 62 categories or text
18 BIOMATERIAL_TYPE categories or text
19 CELL_LINE all identical
20 CELL_TYPE categories or text
21 BIOMATERIAL_PROVIDER categories or text
22 DONOR_AGE categories or text
23 DONOR_HEALTH_STATUS 62 categories or text
24 DONOR_SEX 4 categories or text
25 DONOR_ETHNICITY 55 categories or text
26 TISSUE_TYPE categories or text
27 TISSUE_DEPOT all identical
28 POOL_ID categories or text
29 POOLED_DONOR_IDS all identical
30 GENETIC_CHARACTERISTICS categories or text
31 TREATMENT categories or text
32 DONOR_REGION_OF_RESIDENCE categories or text
33 TWIN_PAIR_ID all identical
34 cmp_mono_vs_neut 67 categories or text
35 cmpV_mono_vs_neut 71 categories or text
36 cmpC_mono_vs_neut 77 categories or text
37 cmpV_mono_vs_Mf 71 categories or text
38 cmpV_mono_vs_Mf0 69 categories or text
39 cmpV_mono_vs_Mf1 71 categories or text
40 cmpV_mono_vs_Mf2 71 categories or text
41 cmpV_Mf0_vs_Mf1 71 categories or text
42 cmpV_Mf0_vs_Mf2 71 categories or text
43 cmpV_Mf1_vs_Mf2 73 categories or text
44 cmpV_Tcells 76 categories or text
45 cmpV_Tcells_vs_NK 74 categories or text
46 cmpV_Tcells_vs_Bnaive 73 categories or text
47 cmpV_TCD4_vs_NK 76 categories or text
48 cmpV_TCD8_vs_NK 77 categories or text
49 cmp_Bnaive_vs_Bmem 73 categories or text
50 cmp_Bnaive_vs_plasma 74 categories or text
51 cmp_plasma_vs_Bmem 76 categories or text
52 cmpV_Bnaive_vs_NK 76 categories or text

The full sample annotation table is available as a comma-separated value file accompanying this report.