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  • EXPR 16S rRNA genes were amplified using universal bacterial primers

    Yu  Zhang, Shanghai Jiaotong University, 2023.12.05

    Project ID

    OEP004015

    Project Name

    16S rRNA gene diversity during DOES incubation under different HHP

    Experiment Type

    Metagenomic

    OEX025544

  • EXPR 16S rRNA genes were amplified using universal archaeal primers

    Yu  Zhang, Shanghai Jiaotong University, 2023.03.13

    Project ID

    OEP004015

    Project Name

    16S rRNA gene diversity during DOES incubation under different HHP

    Experiment Type

    Metagenomic

    OEX022552

  • EXPR Metagenomic sequencing of DOES incubation samples

    Yu  Zhang, , 2023.03.15

    Project ID

    OEP004042

    Project Name

    Metagenomics during DOES incubation under different HHP

    Experiment Type

    Metagenomic

    Protocol

    The extracted microbial DNA was processed to construct metagenome shotgun sequencing libraries following the standard Illumina TruSeq DNA Sample Preparation Guide. Each library was sequenced by Illumina NovaSeq 6000 platform (Illumina, USA) with PE150 strategy at Shanghai Personal Biotechnology (Shanghai, China).

    OEX022859

  • EXPR Metatranscriptomics sequencing of DOES incubation samples

    Yu  Zhang, , 2023.03.15

    Project ID

    OEP004045

    Project Name

    Metatranscriptomics during DOES incubation under different HHP

    Experiment Type

    Metatranscriptomic

    Protocol

    To ensure DNA removal, the RNA extracts are treated with TURBO DNase (Invitrogen, Waltham, MA, USA) as directed by the manufacturer.

    OEX022922

  • EXPR Transcriptomic_WP3NR-sec/tat-nosZ

    Yu  Zhang, , 2023.04.11

    Project ID

    OEP004102

    Project Name

    Heterologous expression and activity assay of clade I and II N2O reductase genes using WP3 strain at 0.1, 20 and 40 MPa

    Experiment Type

    Transcriptomic

    OEX023021

  • EXPR Transcriptomic

    Zhiying  Liao, Guangzhou laboratory, 2024.03.01

    Project ID

    OEP005097

    Project Name

    Differentiation of islet organoids (S5D3)

    Experiment Type

    Transcriptomic

    Protocol

    All experiments were performed according to Trizol nucleic acid extraction, GEO seq transcriptome amplification, and TruePrep® DNA Library Prep Kit V2 for Illumina® instruction manual. The experiments were carried out to extract RNA using Trizol method from organoids. Smart II and KAPA amplification were used, BGI P100 was sequenced, and sheared to approximately 300-500 bp using Q-sep instrument.

    OEX027384

  • EXPR ICC WES

    Shaolai  Zhou, Fudan University, Zhongshan Hospital, 2024.01.31

    Project ID

    OEP005036

    Project Name

    ICC WES

    Experiment Type

    Genomic

    OEX027276

  • EXPR Clone library

    Yu  Zhang, Shanghai Jiaotong University, 2020.12.06

    Project ID

    OEP001350

    Project Name

    Newly-designed primers for hadal ecosystem

    Experiment Type

    Metagenomic

    Protocol

    PCR amplification of full-length 16S rRNA gene

    OEX010862

  • EXPR Metagenomic

    Yu  Zhang, Shanghai Jiaotong University, 2020.12.06

    Project ID

    OEP001350

    Project Name

    Newly-designed primers for hadal ecosystem

    Experiment Type

    Metagenomic

    Protocol

    PCR amplification of multiple 16S rRNA gene hypervariable regions

    OEX010861

  • EXPR Old_RNA-seq

    Yuanliang  Zhang, Shanghai Institute of Hematology, 2024.01.26

    Project ID

    OEP004811

    Project Name

    Loss of Setd2 induces systemic inflammation via embryo-derived Kupffer-like cell differentiation to drive malignant transformation

    Experiment Type

    Transcriptomic

    Protocol

    For bulk RNA-seq, total RNA samples were extracted, and ribosomal RNA (rRNA) was removed using the Ribo-Zero rRNA Removal Kit (MRZMB126, Illumina). Subsequently, rRNA-depleted samples were fragmented, then subjected to first and second strand cDNA synthetization. cDNAs were ligated with sequencing adapters according to standard Novaseq 6000 platform (Illumina) manuscripts.

    OEX027260