Build your own expression explorer with OmicsEE
OmicsEE is a browser-based application designed to facilitate the interactive exploration of omics expression data across multiple atlases.
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Interactive exploration of schistosome expression data
public and re-analyzed; multi-species; at the levels of bulk, single-cell, and spatial atlases!
Explore Schisto.xyz V2New Features
Interactive viz
(Multiple) Gene queries, flexible embeddings and metadata.
Web sharing
Share the current visualization state easily in a URL.
Smart search
Fast expression exploration in multiple datasets simultaneously.
Schisto.xyz is now more powerful and interactive.
Serving schisto researchers since 2018, now offers enhanced datasets, interactive visualisation solutions, and a re-designed powerful search engine.
Multimodal datasets
Bulk RNA-seq for all life stages; integrative re-analysis; single-cell atlases; spatial expression (ITF).
Interactive and sharable
Browser-based interactive visualisation supports multiple queries and embeddings, easy share of states via URLs.
Easy customization
Metadata selection, point colors/sizes, subsetting, distribution and composition plots, all highly customizable.
Powerful search
The search engine has been re-designed to provide an expression overview across multiple datasets, fast and robust.
Robust Search & Expression Overview
Fast visualisation of expression in millions of cells / samples, across multiple datasets, at one time.
Explore your favourite geneAtlas-level Datasets
Sj bulk RNA-seq larval stages
Sj bulk RNA-seq data from Cheng et al 2022 PMID:35025881, 12 larval samples.
Sj bulk RNA-seq 14-28d
Sj bulk RNA-seq data from Wang et al 2017 PMID:28287085, 48 samples 14-28dpi, re-processed
Sj 16-20-26d scRNA-seq
S. japonicum scRNA-seq across developmental stages (preprint) with 60K cells.
Sj adult single-cell spatial data
S. japonicum adult spatial transcriptomics (preprint) with 14K segmented cells.
Smed scRNA all timepoints
Planarian 55K cells at different regeneration time, norm counts. PMID:37268637
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Lifecycle Timepoints
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Bulk Samples
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K Single Cells
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Spatial Sections
The retinoic acid family-like nuclear receptor SmRAR identified by single-cell transcriptomics of ovarian cells controls oocyte differentiation in Schistosoma mansoni
A novel, non-neuronal acetylcholinesterase of schistosome parasites is essential for definitive host infection
Convergent evolution of a genotoxic stress response in a parasite-specific p53 homolog
Rhesus macaques self-curing from a schistosome infection can display complete immunity to challenge
Schistosoma mansoni α-N-acetylgalactosaminidase (SmNAGAL) regulates coordinated parasite movement and egg production
Programmed genome editing of the omega-1 ribonuclease of the blood fluke, Schistosoma mansoni
Latest Doc
Data: Sm miracidium and sporocyst scRNA-seq
Single-cell datasets for S. mansoni miracidia (20K cells) and D5 sporocysts (601 cells) are available now!
Read moreData: Sj bulkRNA larval stages
S. japonicum bulk RNA-seq covering larval stages from Cheng et al 2022. Data was mapped to the HuSjv3 genome and TPM was used for normalization.
Read moreContact Us
Questions or suggestions?
Feel free to drop me a message via social media / email / contact form. If you find the resource useful, please cite (for now)
Lu et al, bioRxiv 308213 (2018) https://doi.org/10.1101/308213
SchistoXYZ (schisto.xyz)
SchistoXYZ, as a valuable resource for the research community, has contributed to more than 30 published studies. Here are a few selections