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  • EXPR Genome sequencing

    Meiying  Xu, Guangdong Institute of Microbiology, 2023.07.31

    Project ID

    OEP004335

    Project Name

    Genomic differences among Sphingobium hydrophobicum strains with different cell surface hydrophobicity

    Experiment Type

    Genomic

    OEX024529

  • EXPR Genomic

    Yuanhu  Ju, , 2021.03.30

    Project ID

    OEP000983

    Project Name

    Test

    Experiment Type

    Genomic

    Protocol

    Nuclei from formaldehyde crosslinked (1%; 10min at room temperature) embryos were isolated and chromatin was fragmented using sonicator (Branson). Lysates were cleared and protein-DNA complexes were isolated using target specific antibodies and Dynabeads. DNA fragments were purified and libraries were prepared by NEBnext DNA Library Prep Kit (NEB, E7370L). Adapter ligated DNA was purified using AMPure XP beads (Beckman Coulter, A63881) and sequenced by illumina HiSeq 2500. NEBnext DNA Library Prep Kit

    OEX012835

  • EXPR OEX_development_2112291633

    development  NODE, , 2021.12.29

    Project ID

    OEP003026

    Project Name

    sample1

    Experiment Type

    Genomic

    OEX015565

  • EXPR OEX_Siyu_2310032139

    Siyu  Jing, , 2023.10.03

    Project ID

    OEP004595

    Project Name

    multiregion proteomics from Human liver MS-DIA

    Experiment Type

    Proteomic

    Protocol

    The resulting spectra from each fraction were searched separately against the homo_sapiens_uniprot_2021_3_9.fasta (194557 sequences) database by the search engine Proteome Discoverer 2.2 (PD 2.2, Thermo). The results of the search and identification by PD2.2 software were imported into Spectronaut (version 14.0, Biognosys) software to generate a library. The eligible peptides and product ions were selected from the spectrum by setting peptides and ion pair selection rules to generate a target list[61]. The DIA data were imported, and ion-pair chromatographic peaks were extracted according to the Target List. The ions were matched, and the peak areas were calculated to qualitatively and quantitatively analyze the peptides. iRT was added to the sample to correct the retention time, and the precursor ion Q value cutoff was set to 0.01. The quantitative values were visualized with Bionic Visualizations Proteomaps (https://proteomaps.net/). Differentially expressed proteins (DEPs; tumor vs. adjacent nontumor, p<0.05, |logFC|>1) underlying enrichment analyses. Gene Ontology and KEGG pathways with adjusted p<0.05 (Benjamini‒Hochberg method) were considered significantly enriched.

    OEX025210

  • EXPR Haplotype_resolved_assemblies_benchmark

    Ying  Yu, Fudan University, 2022.10.05

    Project ID

    OEP003685

    Project Name

    Haplotype-resolved assemblies and variant benchmark of a Chinese Quartet

    Experiment Type

    Genomic

    OEX020575

  • EXPR OEX_Qian_2309232017

    Qian  Yang, CAS, 2023.09.23

    Project ID

    OEP004489

    Project Name

    Mangrove plastisphere MAGs

    Experiment Type

    Genomic

    OEX025187

  • EXPR OEX_Qian_2308291704

    Qian  Yang, CAS, 2023.08.29

    Project ID

    OEP004485

    Project Name

    Mangrove plastisphere 16S+18S+ITS

    Experiment Type

    Genomic

    OEX025064

  • EXPR Bacterial 16S rRNA gene sequencing of lake sediment in China

    Jin  Zeng, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, 2023.03.21

    Project ID

    OEP001556

    Project Name

    Bacterial community diversity of lake sediments in China

    Experiment Type

    Metagenomic

    Protocol

    PCR amplification of 16S rRNA gene V4 hypervariable region

    OEX022931

  • EXPR Transcriptomic

    Guihua  Liu, The Sixth Affiliated Hospital of Sun Yat-sen University, 2023.05.26

    Project ID

    OEP004165

    Project Name

    Spatial and single-cell transcriptomics landscape of adenomyosis

    Experiment Type

    Transcriptomic

    OEX024195

  • EXPR FUSCC_TNBC_scRNASeq

    Ding  Ma, , 2022.05.21

    Project ID

    OEP003394

    Project Name

    FUSCC_TNBC_scRNA

    Experiment Type

    Transcriptomic single cell

    Protocol

    Samples from TNBC patients were isolated and transported rapidly to the research facility. Each sample was subsequently minced on ice to <1 mm cubic piece, followed by enzymatic digestion, centrifuged at 300 rcf for 30 sec at room temperature, and the supernatant was removed without disturbing the cell pellet. Next, 1× PBS containing 0.04% weight/volume BSA (400 µg/ml) was added and then the sample was centrifuged at 300 rcf for 5 min. The cell pellet was resuspended in 1 ml red blood cell lysis buffer and incubated for 10 min at 4°C, followed by resuspension in 1 ml PBS containing 0.04% BSA. Next, samples were filtered over Scienceware Flowmi 40-µm cell strainers (VWR). Finally, the cell concentration and viability were determined by hemocytometer and Trypan Blue staining.

    OEX016830