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Data released on October 22, 2014

Validation of 21 differentially methylated regions in childhood pre-B cell acute lymphoblastic leukemia using amplicon bisulfite sequencing.

Gao, F; Li, M; Xi, Y; Yuan, F (2014): Validation of 21 differentially methylated regions in childhood pre-B cell acute lymphoblastic leukemia using amplicon bisulfite sequencing. GigaScience Database. http://dx.doi.org/10.5524/100105 RIS BibTeX Text

A large number of differentially methylated regions (DMRs) with a similar distribution pattern across different genomic elements were discovered by methylome analysis of five pairs of twins . The DMRs located in coding genes and known regulatory elements were identified and examined in a further cohort of 150 sibling pair acute lymphoblastic leukemia (ALL) patients. We validated SNPs and indels in these coding regions and upstream regulatory region of genes that potentially have functional effects. Additionally we applied high-throughput MiSeq amplicon sequencing on libraries constructed by a bisulfite sequencing PCR (BSP)-based procedure, we successfully amplified and sequenced 21 DMRs. The data presented here represent the 150 ALL sibling pairs only, the data used in the original investigation of the five pairs of twins is available from the SRA and GEO databases under the accesions SRP045691 and GSE59869 respectively.

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Accessions (data not in GigaDB):

SRA: SRP045691
GEO: GSE59869

Genomic, Epigenomic

http://gigadb.org/images/data/cropped/100105.jpg

Samples: Table Settings

Columns:

Common Name
Scienfic Name
Sample Attributes
Taxonomic ID
Genbank Name

Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
19606HumanhumanHomo sapiens Age:39
Analyte type:DNA
Collection date:36927
...
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109606HumanhumanHomo sapiens Age:17
Analyte type:DNA
Collection date:37384
...
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1009606HumanhumanHomo sapiens Age:32
Analyte type:DNA
Collection date:39379
...
+
1019606HumanhumanHomo sapiens Age:46
Analyte type:DNA
Collection date:39410
...
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1029606HumanhumanHomo sapiens Age:49
Analyte type:DNA
Collection date:39410
...
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1039606HumanhumanHomo sapiens Age:25
Analyte type:DNA
Collection date:39545
...
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1049606HumanhumanHomo sapiens Age:33
Analyte type:DNA
Collection date:39545
...
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1059606HumanhumanHomo sapiens Age:36
Analyte type:DNA
Collection date:36047
...
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1069606HumanhumanHomo sapiens Age:50
Analyte type:DNA
Collection date:36047
...
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1079606HumanhumanHomo sapiens Age:32
Analyte type:DNA
Collection date:36224
...
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Displaying 1-10 of 285 Sample(s).

Files: (FTP site) Table Settings

Columns:

File Description
Sample ID
File Type
File Format
Size
Release Date
Download Link
File Attributes

File NameSample IDFile TypeFile FormatSizeRelease Date 
100Methylome dataTSV412.29 KB2014-09-16
100Genome sequenceFASTQ756.74 KB2014-09-16
100Genome sequenceFASTQ687.52 KB2014-09-16
101Methylome dataTSV413.78 KB2014-09-16
101Genome sequenceFASTQ1.01 MB2014-09-16
101Genome sequenceFASTQ1.07 MB2014-09-16
102Methylome dataTSV412.64 KB2014-09-16
102Genome sequenceFASTQ1.35 MB2014-09-16
102Genome sequenceFASTQ1.33 MB2014-09-16
103Methylome dataTSV410.34 KB2014-09-16
Displaying 1-10 of 874 File(s).

History:

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