e.g., HRA000087; HRA000150
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HRA006113
   HRA006113.xlsx
Title:
Cell-free DNA methylation sequencing for ultra-early detection of esophageal squamous cell carcinoma and precancerous lesions
Release date:
2023-11-29
Description:
Detecting early-stage esophageal squamous cell carcinoma (ESCC) and precancerous lesions is critical for improving survival. Here, we conducted whole-genome bisulfite sequencing (WGBS) in 460 cfDNA samples of no-metastatic ESCC or precancerous lesions and matched healthy controls from multicenter. We developed an expanded multimodal analysis (EMMA) framework to simultaneously identify cfDNA methylation, copy number variants (CNVs), and fragmentation markers in cfDNA WGBS data. EMMA significantly improved the detection rate, increasing AUCs from 0.90 to 0.99, and detected 87% of ESCCs and 62% of precancerous lesions with >95% specificity in validation cohorts. Our findings demonstrate the potential of multimodal analysis of cfDNA methylome for ultra-early ESCC detection and monitoring of molecular characteristics.
Data Accessibility:   
Controlled access Request Data
BioProject:
PRJCA021338
Study type:
Disease Study
Disease name:
esophageal carcinoma
Data Access Committee

For each controlled access study, there is a corresponding Data Access Committee(DAC) to determine the access permissions. Access to actual data files is not managed by NGDC.


DAC NO.:
HDAC000119
DAC name:
ESCC
Contact person:
Liu Zhihua
Email:
liuzh@cicams.ac.cn
Description:
ESCC WGS study
Individuals & samples
Individual Accession
Individual Name
Gender
Sample Accession
Sample Name
Sample Description
Individual Accession
Individual Name
Gender
Sample Accession
Sample Name
Sample Description
HRI763774EA103maleHRS1002093EA103EA103_01
HRI763775EA104maleHRS1002094EA104EA104_01
HRI763776EA105maleHRS1002095EA105EA105_01
HRI763777EA106maleHRS1002096EA106EA106_01
HRI763778EA107maleHRS1002097EA107EA107_01
HRI763779EA108femaleHRS1002098EA108EA108_01
HRI763780EA109maleHRS1002099EA109EA109_01
HRI763781EA110maleHRS1002100EA110EA110_01
HRI763782EA111maleHRS1002101EA111EA111_01
HRI763783EA112femaleHRS1002102EA112EA112_01
Showing 1 to 10 of 460 rows rows per page
Files
Request Data
Run accession
Files
Experiment
Experiment title
Platform
Sample
Run accession
Files
Experiment
Experiment title
Platform
Sample
HRR1458867HRR1458867.bam (15.12 GB)HRX1136130WGBS of S1Illumina HiSeq X TenHRS1002093 (SAMC3200775)
HRR1458868HRR1458868.bam (17.26 GB)HRX1136131WGBS of S2Illumina HiSeq X TenHRS1002094 (SAMC3200776)
HRR1458869HRR1458869.bam (16.36 GB)HRX1136132WGBS of S3Illumina HiSeq X TenHRS1002095 (SAMC3200777)
HRR1458870HRR1458870.bam (13.78 GB)HRX1136133WGBS of S4Illumina HiSeq X TenHRS1002096 (SAMC3200778)
HRR1458871HRR1458871.bam (16.05 GB)HRX1136134WGBS of S5Illumina HiSeq X TenHRS1002097 (SAMC3200779)
HRR1458872HRR1458872.bam (14.37 GB)HRX1136135WGBS of S6Illumina HiSeq X TenHRS1002098 (SAMC3200780)
HRR1458873HRR1458873.bam (15.04 GB)HRX1136136WGBS of S7Illumina HiSeq X TenHRS1002099 (SAMC3200781)
HRR1458874HRR1458874.bam (13.62 GB)HRX1136137WGBS of S8Illumina HiSeq X TenHRS1002100 (SAMC3200782)
HRR1458875HRR1458875.bam (15.48 GB)HRX1136138WGBS of S9Illumina HiSeq X TenHRS1002101 (SAMC3200783)
HRR1458876HRR1458876.bam (13.91 GB)HRX1136139WGBS of S10Illumina HiSeq X TenHRS1002102 (SAMC3200784)
Showing 1 to 10 of 460 rows rows per page
Submitter:   Liu Zhihua / liuzh@cicams.ac.cn
Organization:   National Cancer Center/National Clinical Research Center for Cancer/Cancer Hospital, Chinese Academy of Medical Sciences and Peking Union Medical College
Submission date:   2023-11-27
Requests:   17