Overview

collectNET (COmbined ceLL-cEll CommunicaTion NETwork) is a comprehensive web platform for analyzing cell-cell communication, encompassing a online cell-cell communication inference tool and a human cell-cell communication network atlas.

  • As an online analysis tool, collectNET allows users to upload data and obtain reliable communication inference and analysis results based on single-cell RNA-seq data. With prior knowledge of 3,954 ligand-receptor pairs from three public databases and systematic integration of three widely-used inference methods, collectNET provides a comprehensive and reliable online inference workflow, including data pre-processing, inference, and visualization.

  • As an atlas for human organ cell-cell communication, collectNET incorporates single-cell RNA-seq data from Human Cell Landscape (HCL) database to infer 126,785 significant communication pairs across 31 organs and 485 cell types, and presents the results in a user-friendly manner.

Online Inference

      • collectNET facilitates the cell-cell communication networks inference with single-cell RNA sequencing data as input, without the need for any local deployment or computational resources.
      • By inputting gene expression count matrices and cell annotation data, users can personalize parameters and quickly obtain inference results.
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human body
Adrenal-Gland adrenal-gland
Artery artery
Ascending-Colon ascending-colon
Bladder bladder
Bone-Marrow bone
Cervix cervix
Colon colon
Epityphlon epityphlon
Esophagus esophagus
Fallopiantube fallopiantube
Gallbladder gallbladder
Heart heart
Ileum ileum
Jejunum jejunum
Kidney kidney
Liver liver
Lung lung
Omentum omentum
Pancreas pancreas
Peripheral-Blood peripheral-blood
Pleura pleura
Prostate prostate
Rectum rectum
Sigmoid-Colon sigmoid-colon
Spleen spleen
Stomach stomach
Temporal Lobe temporal-lobe
Thyroid thyroid
Trachea trachea
Transverse-Colon transverse-colon
Ureter ureter

Number of celltypes for each organ

Number of interactions for each organ

News and Update

  • Version 1.0 of collectNET has been released.

    Feb 2024

  • Online services for the inference and analysis of cell-cell communication have been deployed.

    Nov 2023

  • The collection, organization, and analysis of data for the reference atlas has completed.

    Sep 2023