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  • EXPR ChIP-seq

    Min  Shao, Chinese acadmey of sciences, 2024.04.09

    Project ID

    OEP005190

    Project Name

    NANOG governs cell metabolism and redox homeostasis to secure human naïve pluripotency

    Experiment Type

    Genomic

    OEX027703

  • EXPR ATAC-seq

    Min  Shao, Chinese acadmey of sciences, 2024.04.09

    Project ID

    OEP005190

    Project Name

    NANOG governs cell metabolism and redox homeostasis to secure human naïve pluripotency

    Experiment Type

    Genomic

    OEX027702

  • EXPR Phyllospheric eukaryotic community of Hydrilla verticillata and Vallisneria natans in Xuanwu Lake

    Jin  Zeng, Nanjing lnstitute of Geography and Limnology, Chinese Academy of Sciences, 2023.12.06

    Project ID

    OEP002727

    Project Name

    Diversity of aquatic plant associated microbial communities in field samples

    Experiment Type

    Metagenomic

    Protocol

    PCR amplification of 18S rRNA gene TAReuk454FWD1 and TAReukREV3 region

    OEX025558

  • EXPR Phyllospheric bacterial community of Hydrilla verticillata and Vallisneria natans in Xuanwu Lake

    Jin  Zeng, , 2023.12.06

    Project ID

    OEP002727

    Project Name

    Diversity of aquatic plant associated microbial communities in field samples

    Experiment Type

    Metagenomic

    Protocol

    PCR amplification of 16S rRNA gene V4 hypervariable region

    OEX025557

  • EXPR Spatial Transcriptome

    Guangdun  Peng, Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences, 2024.06.03

    Project ID

    OEP005365

    Project Name

    Spatiotemporal transcriptome atlas of developing mouse lung

    Experiment Type

    Genomic

    Protocol

    Developmental lungs were separated from wild-type embryos or fetuses at embryonic day 12.5, 13.5, 14.5, 15.5, 16.5, 17.5, 18.5 and postnatal day 0 (P0), and the lungs images were taken for recording. Collected lungs were embedded in a tissue-freezing medium (Leica Microsystems, cat. no. 020108926), then transferred to -80 °C for storage. Each developmental lung was cryo-sectioned (Leica CM3050 S) along the dorsal-ventral axis at 10 μm, and at least four sections of each lung were selected due to the morphology for spatial transcriptome preparation by modified 10x Genomics Visium platform suitable to those samples. Shortly, we optimize the permeabilized condition with the Visium Spatial Tissue Optimization Kit. The ideal lung tissue permeabilized condition was set to 3 min. Selected sections were stained with 1% cresyl violet solution and imaged using a Zeiss Axio Observer 7 microscope under a 10-lensmagnification, then processed for spatial transcriptomics using Visium Spatial Gene Expression Kit (10x Genomics) according to the manufacturer’s instructions. The resulting cDNA was synthesized, amplified and then purified using 0.6X AMpureX beads. The cDNA library was prepared by Library Construction Kit (10x Genomics) and then evaluated by Qubit 4.0 Fluorometer and Qsep100 Bio-Fragment Analyzer (Bioptic). The cDNA libraries were sequenced on Illumina Novaseq 6000 system with paired-end 150bp reads, aiming for 100k raw reads per spot.

    OEX028250

  • EXPR mRNA-seq of COVID-19 patients

    Ying  Yu, Fudan University, 2020.04.27

    Project ID

    OEP000868

    Project Name

    COVID-19 severity is associated with distinctive immune responses and multi-organ injury

    Experiment Type

    Transcriptomic

    Protocol

    Total RNA from whole blood samples was extracted using the RNeasy Plus Universal Mini Kit (Qiagen) following the manufacturer’s introductions. The quantity and quality of RNA solution was assessed using a Qubit Flex fluorometer (Invitrogen) and an Agilent Bioanalyzer (Agilent Technologies) before library construction and sequencing. RNA library construction was performed as described in the VAHTS Universal V6 RNA-seq Library Prep Kit for Illumina (Vazyme, China). Ribosomal, globin and RN7S RNAs were depleted using the specially designed probes (Vazyme, China). After final library quantification using a Qubit Flex fluorometer (Invitrogen) and quality control using the Bioptic Qsep100 to confirm the expected size distributions, all libraries (RNA and exRNA) were pair-end (150-bp reads) sequenced on the Illumina NovaSeq6000 platform (Illumina).

    OEX003179

  • EXPR OEX_Quanrui_2405292235

    Quanrui  Chen, , 2024.05.29

    Project ID

    OEP005359

    Project Name

    Organic Carbon Transformation by Marine Heterotrophic Bacteria Adapting to Hypoxia

    Experiment Type

    Genomic

    OEX027901

  • EXPR HS_genomic DNA extraction

    Ningning  Liu, Shanghai Jiao Tong University, 2021.01.15

    Project ID

    OEP001340

    Project Name

    Multi-kingdom microbiota analyses identify bacterial-fungal interactions and biomarkers of colorectal cancer across cohorts

    Experiment Type

    Metagenomic

    Protocol

    WGS of DNA extracted from fecal samples of healthy subjects.

    OEX011789

  • EXPR CRC_genomic DNA extraction

    Ningning  Liu, Shanghai Jiao Tong University, 2021.01.15

    Project ID

    OEP001340

    Project Name

    Multi-kingdom microbiota analyses identify bacterial-fungal interactions and biomarkers of colorectal cancer across cohorts

    Experiment Type

    Metagenomic

    Protocol

    WGS of DNA extracted from fecal samples of CRC patients.

    OEX011788

  • EXPR AMI 16S

    Chenfen  Zhou, PICB, 2021.01.22

    Project ID

    OEP001718

    Project Name

    AMI project

    Experiment Type

    Metagenomic

    OEX012037