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@@ -65,3 +65,6 @@ controls/GSE42861/GSE42861_methylation_signal_matrix_SUBSETS/GSE42861_methylatio
 controls/GSE42861/GSE42861_methylation_signal_matrix_SUBSETS/GSE42861_methylation_signal_matrix_3of13.txt filter=lfs diff=lfs merge=lfs -text
 controls/GSE42861/GSE42861_methylation_signal_matrix_SUBSETS/GSE42861_methylation_signal_matrix_11of13.txt filter=lfs diff=lfs merge=lfs -text
 controls/GSE40279/GSE40279_average_beta_GSM990464-GSM990627.txt filter=lfs diff=lfs merge=lfs -text
+controls/GSE42861/GSE42861_methylation_signal_matrix_SUBSETS/GSE42861_methylation_signal_matrix_12of13.txt filter=lfs diff=lfs merge=lfs -text
+controls/GSE40279/GSE40279_average_beta_GSM989991-GSM990299.txt filter=lfs diff=lfs merge=lfs -text
+controls/GSE40279/GSE40279_average_beta_GSM989827-GSM989990.txt filter=lfs diff=lfs merge=lfs -text

LC/GSE161678/meta/GSE161678_family.xml/GSE161678_family.xml

@@ -0,0 +1,1811 @@
+<?xml version="1.0" encoding="UTF-8" standalone="no"?>
+
+<MINiML
+   xmlns="http://www.ncbi.nlm.nih.gov/geo/info/MINiML"
+   xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"
+   xsi:schemaLocation="http://www.ncbi.nlm.nih.gov/geo/info/MINiML http://www.ncbi.nlm.nih.gov/geo/info/MINiML.xsd"
+   version="0.5.0" >
+
+  <Contributor iid="contrib1">
+    <Person><First>Neha</First><Last>Mishra</Last></Person>
+    <Email>[email protected]</Email>
+    <Laboratory>Cell biology Lab</Laboratory>
+    <Organization>Institute of Clinical Molecular Biology</Organization>
+    <Address>
+      <Line>Rosalind-Franklin-Str. 12</Line>
+      <City>Kiel</City>
+      <Zip-Code>24105</Zip-Code>
+      <Country>Germany</Country>
+    </Address>
+  </Contributor>
+
+  <Contributor iid="contrib2">
+    <Organization>Illumina Inc.</Organization>
+    <Email>[email protected], [email protected]</Email>
+    <Phone>1 800 809 4566 </Phone>
+    <Organization>Illumina Inc.</Organization>
+    <Address>
+      <Line>9885 Towne Centre Drive</Line>
+      <City>San Diego</City>
+      <State>CA</State>
+      <Zip-Code>92121</Zip-Code>
+      <Country>USA</Country>
+    </Address>
+    <Web-Link>www.illumina.com</Web-Link>
+  </Contributor>
+
+  <Contributor iid="contrib3">
+    <Person><First>Florian</First><Last>Tran</Last></Person>
+  </Contributor>
+
+  <Contributor iid="contrib4">
+    <Person><First>Johanna</First><Middle>I</Middle><Last>Blase</Last></Person>
+  </Contributor>
+
+  <Contributor iid="contrib5">
+    <Person><First>Philip</First><Last>Rosentiel</Last></Person>
+  </Contributor>
+
+  <Database iid="GEO">
+    <Name>Gene Expression Omnibus (GEO)</Name>
+    <Public-ID>GEO</Public-ID>
+    <Organization>NCBI NLM NIH</Organization>
+    <Web-Link>http://www.ncbi.nlm.nih.gov/geo</Web-Link>
+    <Email>[email protected]</Email>
+  </Database>
+
+  <Platform iid="GPL21145">
+    <Status database="GEO">
+      <Submission-Date>2015-11-16</Submission-Date>
+      <Release-Date>2015-11-16</Release-Date>
+      <Last-Update-Date>2019-01-20</Last-Update-Date>
+    </Status>
+    <Title>Infinium MethylationEPIC</Title>
+    <Accession database="GEO">GPL21145</Accession>
+    <Technology>oligonucleotide beads</Technology>
+    <Distribution>commercial</Distribution>
+    <Organism taxid="9606">Homo sapiens</Organism>
+    <Manufacturer>Illumina, Inc.</Manufacturer>
+    <Manufacture-Protocol>
+See manufacturer's website
+    </Manufacture-Protocol>
+    <Contact-Ref ref="contrib2" />
+    <Supplementary-Data type="CSV">
+ftp://ftp.ncbi.nlm.nih.gov/geo/platforms/GPL21nnn/GPL21145/suppl/GPL21145_MethylationEPIC_15073387_v-1-0.csv.gz
+    </Supplementary-Data>
+    <Relation type="Alternative to" target="GPL23976" />
+    <Data-Table>
+      <Column position="1">
+        <Name>ID</Name>
+        <Description>IlmnID</Description>
+      </Column>
+      <Column position="2">
+        <Name>SPOT_ID</Name>
+      </Column>
+      <Column position="3">
+        <Name>AddressA_ID</Name>
+      </Column>
+      <Column position="4">
+        <Name>AlleleA_ProbeSeq</Name>
+      </Column>
+      <Column position="5">
+        <Name>AddressB_ID</Name>
+      </Column>
+      <Column position="6">
+        <Name>AlleleB_ProbeSeq</Name>
+      </Column>
+      <Column position="7">
+        <Name>Infinium_Design_Type</Name>
+      </Column>
+      <Column position="8">
+        <Name>Next_Base</Name>
+      </Column>
+      <Column position="9">
+        <Name>Color_Channel</Name>
+      </Column>
+      <Column position="10">
+        <Name>Forward_Sequence</Name>
+      </Column>
+      <Column position="11">
+        <Name>Genome_Build</Name>
+      </Column>
+      <Column position="12">
+        <Name>CHR</Name>
+      </Column>
+      <Column position="13">
+        <Name>MAPINFO</Name>
+      </Column>
+      <Column position="14">
+        <Name>SourceSeq</Name>
+      </Column>
+    <External-Data rows="868564">
+GPL21145-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Platform>
+
+  <Sample iid="GSM4912578">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_1_EPIC_TA</Title>
+    <Accession database="GEO">GSM4912578</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Remission
+      </Characteristics>
+      <Characteristics tag="age">
+80
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+4
+      </Characteristics>
+      <Characteristics tag="patient number">
+1
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912578/suppl/GSM4912578_204088010047_R02C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912578/suppl/GSM4912578_204088010047_R02C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912578-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912579">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_1_EPIC_TA2</Title>
+    <Accession database="GEO">GSM4912579</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Remission
+      </Characteristics>
+      <Characteristics tag="age">
+80
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+4
+      </Characteristics>
+      <Characteristics tag="patient number">
+1
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912579/suppl/GSM4912579_203991470114_R07C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912579/suppl/GSM4912579_203991470114_R07C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912579-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912580">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_1_EPIC_TB</Title>
+    <Accession database="GEO">GSM4912580</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Remission
+      </Characteristics>
+      <Characteristics tag="age">
+80
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+5
+      </Characteristics>
+      <Characteristics tag="patient number">
+1
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912580/suppl/GSM4912580_204088010077_R02C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912580/suppl/GSM4912580_204088010077_R02C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912580-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912581">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_1_EPIC_TB2</Title>
+    <Accession database="GEO">GSM4912581</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Remission
+      </Characteristics>
+      <Characteristics tag="age">
+80
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+6
+      </Characteristics>
+      <Characteristics tag="patient number">
+1
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912581/suppl/GSM4912581_204088010047_R03C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912581/suppl/GSM4912581_204088010047_R03C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912581-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912582">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_1_EPIC_TC</Title>
+    <Accession database="GEO">GSM4912582</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Remission
+      </Characteristics>
+      <Characteristics tag="age">
+80
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+6
+      </Characteristics>
+      <Characteristics tag="patient number">
+1
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912582/suppl/GSM4912582_204088010047_R06C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912582/suppl/GSM4912582_204088010047_R06C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912582-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912583">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_2_EPIC_TA</Title>
+    <Accession database="GEO">GSM4912583</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+No Remssion
+      </Characteristics>
+      <Characteristics tag="age">
+57
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+1
+      </Characteristics>
+      <Characteristics tag="patient number">
+2
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912583/suppl/GSM4912583_204088010047_R04C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912583/suppl/GSM4912583_204088010047_R04C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912583-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912584">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_2_EPIC_TA2</Title>
+    <Accession database="GEO">GSM4912584</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+No Remssion
+      </Characteristics>
+      <Characteristics tag="age">
+57
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+2
+      </Characteristics>
+      <Characteristics tag="patient number">
+2
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912584/suppl/GSM4912584_204088010047_R08C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912584/suppl/GSM4912584_204088010047_R08C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912584-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912585">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_3_EPIC_TA</Title>
+    <Accession database="GEO">GSM4912585</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+No Remssion
+      </Characteristics>
+      <Characteristics tag="age">
+80
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+2
+      </Characteristics>
+      <Characteristics tag="patient number">
+3
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912585/suppl/GSM4912585_204088010077_R03C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912585/suppl/GSM4912585_204088010077_R03C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912585-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912586">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_4_EPIC_TA</Title>
+    <Accession database="GEO">GSM4912586</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Remission
+      </Characteristics>
+      <Characteristics tag="age">
+60
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+1
+      </Characteristics>
+      <Characteristics tag="patient number">
+4
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912586/suppl/GSM4912586_204088010047_R05C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912586/suppl/GSM4912586_204088010047_R05C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912586-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912587">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_4_EPIC_TA2</Title>
+    <Accession database="GEO">GSM4912587</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Remission
+      </Characteristics>
+      <Characteristics tag="age">
+60
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+3
+      </Characteristics>
+      <Characteristics tag="patient number">
+4
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912587/suppl/GSM4912587_204088010047_R07C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912587/suppl/GSM4912587_204088010047_R07C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912587-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912588">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_4_EPIC_TB</Title>
+    <Accession database="GEO">GSM4912588</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Remission
+      </Characteristics>
+      <Characteristics tag="age">
+60
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+5
+      </Characteristics>
+      <Characteristics tag="patient number">
+4
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912588/suppl/GSM4912588_204088010077_R01C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912588/suppl/GSM4912588_204088010077_R01C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912588-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912589">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_5_EPIC_TA</Title>
+    <Accession database="GEO">GSM4912589</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Remission
+      </Characteristics>
+      <Characteristics tag="age">
+49
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+1
+      </Characteristics>
+      <Characteristics tag="patient number">
+5
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912589/suppl/GSM4912589_204088010077_R04C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912589/suppl/GSM4912589_204088010077_R04C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912589-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912590">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_5_EPIC_TA2</Title>
+    <Accession database="GEO">GSM4912590</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Remission
+      </Characteristics>
+      <Characteristics tag="age">
+49
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+3
+      </Characteristics>
+      <Characteristics tag="patient number">
+5
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912590/suppl/GSM4912590_204088010047_R01C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912590/suppl/GSM4912590_204088010047_R01C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912590-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912591">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_5_EPIC_TB</Title>
+    <Accession database="GEO">GSM4912591</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Remission
+      </Characteristics>
+      <Characteristics tag="age">
+49
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+6
+      </Characteristics>
+      <Characteristics tag="patient number">
+5
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912591/suppl/GSM4912591_203991470114_R08C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912591/suppl/GSM4912591_203991470114_R08C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912591-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912592">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_5_EPIC_TB2</Title>
+    <Accession database="GEO">GSM4912592</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Remission
+      </Characteristics>
+      <Characteristics tag="age">
+49
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+6
+      </Characteristics>
+      <Characteristics tag="patient number">
+5
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912592/suppl/GSM4912592_204088010077_R06C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912592/suppl/GSM4912592_204088010077_R06C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912592-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912593">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_6_EPIC_TA</Title>
+    <Accession database="GEO">GSM4912593</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Remission
+      </Characteristics>
+      <Characteristics tag="age">
+70
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+5
+      </Characteristics>
+      <Characteristics tag="patient number">
+6
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912593/suppl/GSM4912593_204088010077_R05C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912593/suppl/GSM4912593_204088010077_R05C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912593-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912594">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_6_EPIC_TA2</Title>
+    <Accession database="GEO">GSM4912594</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Remission
+      </Characteristics>
+      <Characteristics tag="age">
+70
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+5
+      </Characteristics>
+      <Characteristics tag="patient number">
+6
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912594/suppl/GSM4912594_204088010077_R07C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912594/suppl/GSM4912594_204088010077_R07C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912594-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912595">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>PC_6_EPIC_TB</Title>
+    <Accession database="GEO">GSM4912595</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Remission
+      </Characteristics>
+      <Characteristics tag="age">
+70
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+6
+      </Characteristics>
+      <Characteristics tag="patient number">
+6
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912595/suppl/GSM4912595_204088010077_R08C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912595/suppl/GSM4912595_204088010077_R08C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912595-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912596">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>HC_1_EPIC</Title>
+    <Accession database="GEO">GSM4912596</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Healthy
+      </Characteristics>
+      <Characteristics tag="age">
+65
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+0
+      </Characteristics>
+      <Characteristics tag="patient number">
+7
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912596/suppl/GSM4912596_201220980037_R04C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912596/suppl/GSM4912596_201220980037_R04C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912596-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912597">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>HC_2_EPIC</Title>
+    <Accession database="GEO">GSM4912597</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Healthy
+      </Characteristics>
+      <Characteristics tag="age">
+52
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+0
+      </Characteristics>
+      <Characteristics tag="patient number">
+8
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912597/suppl/GSM4912597_201228780134_R01C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912597/suppl/GSM4912597_201228780134_R01C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912597-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912598">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>HC_3_EPIC</Title>
+    <Accession database="GEO">GSM4912598</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Healthy
+      </Characteristics>
+      <Characteristics tag="age">
+47
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+0
+      </Characteristics>
+      <Characteristics tag="patient number">
+9
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912598/suppl/GSM4912598_202119820133_R02C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912598/suppl/GSM4912598_202119820133_R02C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912598-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912599">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>HC_4_EPIC</Title>
+    <Accession database="GEO">GSM4912599</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Healthy
+      </Characteristics>
+      <Characteristics tag="age">
+59
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+0
+      </Characteristics>
+      <Characteristics tag="patient number">
+10
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912599/suppl/GSM4912599_202119820190_R06C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912599/suppl/GSM4912599_202119820190_R06C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912599-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912600">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>HC_5_EPIC</Title>
+    <Accession database="GEO">GSM4912600</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Healthy
+      </Characteristics>
+      <Characteristics tag="age">
+57
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+0
+      </Characteristics>
+      <Characteristics tag="patient number">
+11
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912600/suppl/GSM4912600_202119820125_R07C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912600/suppl/GSM4912600_202119820125_R07C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912600-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Sample iid="GSM4912601">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>HC_6_EPIC</Title>
+    <Accession database="GEO">GSM4912601</Accession>
+    <Type>genomic</Type>
+    <Channel-Count>1</Channel-Count>
+    <Channel position="1">
+      <Source>Peripheral Whole Blood</Source>
+      <Organism taxid="9606">Homo sapiens</Organism>
+      <Characteristics tag="remission">
+Healthy
+      </Characteristics>
+      <Characteristics tag="age">
+55
+      </Characteristics>
+      <Characteristics tag="pseudotime">
+0
+      </Characteristics>
+      <Characteristics tag="patient number">
+12
+      </Characteristics>
+      <Molecule>genomic DNA</Molecule>
+      <Extract-Protocol>
+Blood (2.7 mL) was taken from each patient into an Ethylenediaminetetraacetic acid (EDTA) monovette (Sarstedt) to decelerate blood coagulation. The monovette was centrifuged for 15 min at 3000 rpm and the buffy coat was frozen in micronic tubes at -80°C. DNA was extracted using the QIAamp DNA Blood Mini Kit (Qiagen) according to manufacturer’s protocol with a QIACube (Qiagen).
+      </Extract-Protocol>
+      <Label>Cy3, Cy5</Label>
+      <Label-Protocol>
+Standard Illumina Protocol
+      </Label-Protocol>
+    </Channel>
+    <Hybridization-Protocol>
+Standard Illumina Protocol
+    </Hybridization-Protocol>
+    <Scan-Protocol>
+The Infinium© MethylationEPIC BeadChip was used to measure the DNA methylation levels. The Infinium© MethylationEPIC BeadChip targets the following regions: CpG islands, CpG sites, open chromatin, transcription factor binding sites, enhancer and miRNA promoter regions. The EPIC arrays were processed according to Illumina recommendations.
+    </Scan-Protocol>
+    <Data-Processing>
+DNA methylation data was analysed using the Bioconductor package RnBeads (version 1.12.1). Sites that overlapped with SNPs and had unreliable measurements were filtered resulting in the removal of 17,371 sites and 19,745 probes. 2,977 Context-specific probes, 18,976 probes on the sex chromosomes, and 4 probes with missing values were also removed. In total 41,702 out of 866,895 probes were filtered.
+    </Data-Processing>
+    <Platform-Ref ref="GPL21145" />
+    <Contact-Ref ref="contrib1" />
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912601/suppl/GSM4912601_202119820252_R06C01_Grn.idat.gz
+    </Supplementary-Data>
+    <Supplementary-Data type="IDAT">
+ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM4912nnn/GSM4912601/suppl/GSM4912601_202119820252_R06C01_Red.idat.gz
+    </Supplementary-Data>
+    <Data-Table>
+      <Column position="1">
+        <Name>ID_REF</Name>
+      </Column>
+      <Column position="2">
+        <Name>VALUE</Name>
+        <Description>The signal intensity values were normalized using the dasen method.</Description>
+      </Column>
+      <Column position="3">
+        <Name>Detection Pval</Name>
+      </Column>
+    <External-Data rows="825193">
+GSM4912601-tbl-1.txt
+    </External-Data>
+    </Data-Table>
+  </Sample>
+
+  <Series iid="GSE161678">
+    <Status database="GEO">
+      <Submission-Date>2020-11-17</Submission-Date>
+      <Release-Date>2020-12-11</Release-Date>
+      <Last-Update-Date>2020-12-11</Last-Update-Date>
+    </Status>
+    <Title>Longitudinal multi-omics identifies responses of megakaryocytes, erythroid cells and plasmablasts as hallmarks of severe COVID-19 trajectories [methylation]</Title>
+    <Accession database="GEO">GSE161678</Accession>
+    <Pubmed-ID>33296687</Pubmed-ID>
+    <Summary>
+To help characterise the temporal dynamics of host response during COVID-19, we performed a longitudinal DNA methylation analysis in a cohort of 12 patients. DNA was extracted from peripheral blood sampled at up to 5 time points per patient. At each sample point, a patient’s disease trajectory, “pseudotime”, was categorised according to clinical parameters.  DNA methylation profiling by Illumina Bead Arrays was performed on each sample. We found CpG sites hypomethylated during COVID-19 were highly enriched in cis of transcripts related to positive regulation of TNF secretion and innate immune signalling, indicating potential long-term regulation of immunological misfiring by epigenetic processes.
+    </Summary>
+    <Overall-Design>
+6 patients were sampled at days 0, 2, 7, 10, 13 and/or at discharge. 6 healthy donors were sampled at a single time point.
+    </Overall-Design>
+    <Type>Methylation profiling by genome tiling array</Type>
+    <Contributor-Ref ref="contrib1" position="1" />
+    <Contributor-Ref ref="contrib3" position="2" />
+    <Contributor-Ref ref="contrib4" position="3" />
+    <Contributor-Ref ref="contrib5" position="4" />
+    <Contact-Ref ref="contrib1" />
+    <Sample-Ref ref="GSM4912578" />
+    <Sample-Ref ref="GSM4912579" />
+    <Sample-Ref ref="GSM4912580" />
+    <Sample-Ref ref="GSM4912581" />
+    <Sample-Ref ref="GSM4912582" />
+    <Sample-Ref ref="GSM4912583" />
+    <Sample-Ref ref="GSM4912584" />
+    <Sample-Ref ref="GSM4912585" />
+    <Sample-Ref ref="GSM4912586" />
+    <Sample-Ref ref="GSM4912587" />
+    <Sample-Ref ref="GSM4912588" />
+    <Sample-Ref ref="GSM4912589" />
+    <Sample-Ref ref="GSM4912590" />
+    <Sample-Ref ref="GSM4912591" />
+    <Sample-Ref ref="GSM4912592" />
+    <Sample-Ref ref="GSM4912593" />
+    <Sample-Ref ref="GSM4912594" />
+    <Sample-Ref ref="GSM4912595" />
+    <Sample-Ref ref="GSM4912596" />
+    <Sample-Ref ref="GSM4912597" />
+    <Sample-Ref ref="GSM4912598" />
+    <Sample-Ref ref="GSM4912599" />
+    <Sample-Ref ref="GSM4912600" />
+    <Sample-Ref ref="GSM4912601" />
+    <Supplementary-Data type="TAR">
+ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE161nnn/GSE161678/suppl/GSE161678_RAW.tar
+    </Supplementary-Data>
+    <Relation type="SubSeries of" target="GSE161778" />
+    <Relation type="BioProject" target="https://www.ncbi.nlm.nih.gov/bioproject/PRJNA679336" />
+  </Series>
+
+</MINiML>