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  • scRNAseq006

    boya zhang, , 2024.02.27

    Analysis type

    Other

    OEZ014592

  • Chinese_oilfield_bins

    Cui-Jing Zhang, , 2023.06.16

    Analysis type

    De Novo Assembly

    OEZ014112

  • Processed RNA-seq data

    Yifei Cheng, , 2023.12.18

    Description

    Raw sequencing reads containing rRNA were filtered by mapping the sequencing reads to the rRNA database using Bowtie2 (version 2.3.4.1). The paired-end reads were further filtered by SOAPnuke (version 2.1.0). Bowtie2 was also used to map RNA reads to UCSC human transcriptome GRCh38. The expression levels of all genes and isoforms were estimated by RSEM (version 1.3.1) with default parameters.

    Analysis type

    Other

    OEZ014526

  • SNV and somatic indel

    Yifei Cheng, , 2023.04.15

    Description

    MuSE(v1.0), Strelka2(v2.9.9), MutTect2, SomaticSniper(v.1.0.5.0), and Lancet(v.1.0.7) were used to detect somatic SNVs while somatic indels were detected by Strelka2(v2.9.9), MutTect2, Lancet(v.1.0.7), and SvABA(v.0.2.1). Both SNVs and somatic indels, called by at least two kinds of software were retained.

    Analysis type

    Other

    OEZ013906

  • Processed_snRNA-seq

    Yifei Cheng, , 2023.05.11

    Description

    Data were aligned to the human genome (hg38), and gene counts were quantified using the default parameters of DNBelab C4 scRNA-seq (version v3.0, BGI). After the DNBelab C4 scRNA-seq pipeline, the raw expression matrices were used as an input for the SoupX algorithm to remove ambient RNA contamination, according to the tutorial (version 1.6.1). The SoupX-correction matrices were then further processed using the Seurat R package (version 4.2.0). Chord R package(version 2.0.11) were used to exclude doublets from each sample.

    Analysis type

    Other

    OEZ013915

  • TPM.matrix

    Lunshan Xu, Army Medical University Daping Hospital: Third Military Medical University Daping Hospital, 2024.02.02

    Analysis type

    Other

    OEZ014587

  • OEZ_Hui_2402011832

    Hui Tang, , 2024.02.01

    Description

    neuron raw network

    Analysis type

    De Novo Assembly

    OEZ014584

  • seurat

    shenbing shan, , 2024.01.24

    Description

    down-stream analysis of gene expression matrix generated by cellranger or celescope.

    Analysis type

    Reference Alignment

    OEZ014581

  • meRIP-seq after FTO deprivation in CAFs

    Peiwei Chai, , 2023.11.01

    Analysis type

    De Novo Assembly

    OEZ014370

  • ScRNA-seq panels-st02

    Peiwei Chai, , 2024.01.22

    Analysis type

    De Novo Assembly

    OEZ014568