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  • Processed single-cell spatial transcriptomics

    Yifei Cheng, , 2023.05.12

    Description

    The raw reads were decoded by ST_BarcodeMap (version 0.0.1), filtered adapter sequence by Fastp, and then aligned to the reference genome GRCh38.p12(Human) via STAR. Mapped reads were annotated, then calculated by HandleBamz(version 1.0.0). Single-cell segmentation of Stereo-seq data is performed by a self-written algorithm.

    Analysis type

    Other

    OEZ013917

  • Processed_snATAC-seq

    Yifei Cheng, , 2023.05.11

    Description

    Data were aligned to the human genome (hg38), and the fragment files were achieved using the default parameters of DNBelab C4 snATAC-seq (version v3.0, BGI). Doublet removal, iterative latent semantic indexing (LSI) dimensionality reduction, initial clustering, and snATAC-se-snRNA-seq data integration were performed using ArchR(v1.0).

    Analysis type

    Other

    OEZ013916

  • Processed shotgun proteomic profiles

    Yifei Cheng, , 2023.04.16

    Description

    Missing quantitative values were imputed using the K-nearest neighbor (KNN) algorithm in the DreamAI R package (v0.1.0).

    Analysis type

    Other

    OEZ013907

  • Whole genome sequecing analysis of IRD families

    Xin Li, , 2023.12.18

    Description

    A total of 271 unresolved IRD patients and their available family members (n=646) were screened using WGS technology to identify pathogenic SVs and intronic variants in 792 known ocular disease genes. The pathogenicity of all identified variants was evaluated through a combination of factors including allele frequencies (AFs) in the general population, functional annotation, and inheritance pattern analysis.

    Analysis type

    De Novo Assembly

    OEZ014524

  • xQTL analysis

    Chunchun Yuan, , 2023.11.27

    Description

    xQTL summary data for SNPs associated with selected M3S markers from methylation, metabolite and microbiota data

    Analysis type

    Other

    OEZ014452

  • PDAC_Proteomics_Library

    Chenxu Gao, , 2023.03.31

    Analysis type

    Other

    OEZ013891

  • Standard Genome Reference (Mock-Ref)

    Yu Zhang, , 2023.02.23

    Description

    This is the pooled reference genomes composed of 10 selected strains (Mock-Ref) used in MT-Enviro.

    Analysis type

    Reference Alignment

    OEZ013255

  • TMT6_Label_to_Sample_Mapping_File

    cheng cheng, Shanghai Jiaotong University School of Medicine affiliated Xinhua Hospital, 2023.11.10

    Analysis type

    Other

    OEZ014373

  • Cell line transcriptome

    Cheng Cheng, , 2023.11.07

    Description

    mRNA expression data of Wilm's tumor cell line after knockdown of EHMT2. Each experiment has three replications.

    Analysis type

    Other

    OEZ014371

  • FUSCC08

    Yijun Shen, Fudan University Shanghai Cancer Center, 2023.11.13

    Analysis type

    Other

    OEZ014449