title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-F13.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-F14.allc.tsv.gz

status: Public on Jul 05 2023

type: SRA

city: La Jolla

first: Joseph

middle: R

last: Ecker

state: CA

address: 10010 North Torrey Pines Road

department: Genomic Analysis Laboratory

country: USA

institute: HHMI-Salk-Institute

library_source: genomic

data_processing:
Library strategy: snmC-seq3
Reads trimed with Cutadapt for adapters and low quality bases (Phred score >= 20)
The resulting files are mapped to in-silico bisulfite converted reference genome using Bismark,
The raw BAM file will be filtered using samtools to filter reads by MAPQ > 10 and use Picard to remove PCR duplicates
Tab-delimited files (ALLC files) describing the quantity of unmethylated and methylated cytosine base calls will be generated with in-house developing package using the filtered BAM files
Genome_build: hg38-donor-snp-substituted
Supplementary_files_format_and_content: tab-delimited files (ALLC files) describing the quantity of unmethylated and methylated cytosine base calls, Columns are: 1, Chromosome, 2, Position, 3, Strand, 4, Cytosin Context, 5, methylated base call, 6, total mapped base call, 7, not used, place holder column

molecule: genomic DNA

organism: Homo sapiens

extract_protocol:
Regions of human brains were dissected,
Library prepared following protocol discribed in Luo, Chongyuan, Angeline Rivkin, Jingtian Zhou, Justin P, Sandoval, Laurie Kurihara, Jacinta Lucero, Rosa Castanon, et al, 2018, “Robust Single-Cell DNA Methylome Profiling with snmC-seq2,” Nature Communications 9 (1): 3824,

tag: brain region

tag: gender

value: M


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-G1.allc.tsv.gz


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title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-E14.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-E1.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-D2.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-K14.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-D14.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-K13.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-D13.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-I14.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-D1.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-C2.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-J14.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-C13.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-B2.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P5-1-C23-B14.allc.tsv.gz


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title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-I24.allc.tsv.gz


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title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-H23.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-H12.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-I11.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-H11.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-G23.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-G12.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-G11.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-F24.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-F12.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-F11.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-F23.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-E23.allc.tsv.gz


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title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-D24.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-C24.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-E12.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-D12.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-D23.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-J11.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-D11.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-C23.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-C11.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-G24.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-B11.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-B23.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-H24.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-B12.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-A12.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-A23.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-B24.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-A11.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-C12.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-P22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-P21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-A24.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-6-O21-E24.allc.tsv.gz


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title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-O9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-O10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-O21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-N22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-P10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-N9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-N21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-M21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-N10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-M9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-L9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-M10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-M22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-L22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-L10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-K22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-L21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-J22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-K10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-J9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-I21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-I22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-J21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-I9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-I10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-O22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-J10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-H9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-H22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-H21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-H10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-F10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-G21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-G10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-E9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-F22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-G22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-G9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-F9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-K9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-E22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-K21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-E21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-E10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-D9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-D22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-D10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-D21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-C9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-C22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-C21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-C10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-B9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-B10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-B21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-A9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P4-5-O21-B22.allc.tsv.gz


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title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-6-K15-A12.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-5-K15-C22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-5-K15-D10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-5-K15-C21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-5-K15-C10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-5-K15-B22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-5-K15-B21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-5-K15-A22.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-5-K15-B10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-5-K15-A21.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-5-K15-B9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-5-K15-A10.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-4-K15-O7.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-4-K15-P19.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-4-K15-O8.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-5-K15-A9.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-4-K15-O20.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-4-K15-P20.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-4-K15-N8.allc.tsv.gz


title: HBA_210526_H1930002_CX52_CA1R_CA2R_CA3R_1_P1-4-K15-O19.allc.tsv.gz