The Cell Atlas

The Cell Atlas provides high-resolution insights into the expression and spatio-temporal distribution of RNA and proteins in human cell lines. Genome-wide mRNA expression is determined by deep RNA-sequencing in a panel of 69 cell lines, representing various cell populations in different organs and tissues of the human body. The subcellular distributions of proteins encoded by 12813 genes (65% of the human protein-coding genes) are investigated in a subset of cell lines selected based on corresponding RNA expression. Protein localization data is derived from antibody-based profiling, using immunofluorescence (ICC-IF) and confocal microscopy, and classified into 35 different organelles and fine subcellular structures. The Cell Atlas offers a database for detailed exploration of individual genes and proteins of interest, as well as for systematic analysis of transcriptomes and proteomes in broader contexts, in order to increase the understanding of human biology at the cellular and subcellular levels.


The Human Cellular and Organelle Proteome chapters are a collection of interactive pages providing conceptual overviews, compilations and analyses of the data generated within the Cell Atlas from different perspectives. Discover the Cell line transcriptome, the Organelle proteome, the Cell cycle-dependent proteome and the Multilocalizing proteome, with the opportunity to take on a holistic view of RNA and proteins in human cells. You can also find information about and analyses of each of the organelles and subcellular structures classified within the Cell Atlas, together with beautiful example images. The chapters can serve as an educational resource, but also as a starting point for deeper exploration of the fascinating spatiotemporal complexity of transcriptomes and proteomes of human cells.

Nuclear membrane
- Nuclear membrane
- Nucleoli
- Nucleoli fibrillar center
- Nucleoli rim
- Kinetochore
- Mitotic chromosome
- Nuclear bodies
- Nuclear speckles
- Nucleoplasm
Actin Filaments
- Actin filaments
- Cleavage furrow
- Focal adhesion sites
- Centriolar satellite
- Centrosome
- Aggresome
- Cytoplasmic bodies
- Cytosol
- Rods & rings
Intermediate Filaments
- Intermediate filaments
- Cytokinetic bridge
- Microtubule ends
- Microtubules
- Midbody
- Midbody ring
- Mitotic spindle
- Mitochondria
Endoplasmic Reticulum
- Endoplasmic reticulum
Golgi Apparatus
- Golgi apparatus
Plasma Membrane
- Cell junctions
- Plasma membrane
Secreted proteins
- Secreted proteins
- Endosomes
- Lipid droplets
- Lysosomes
- Peroxisomes
- Vesicles

A Journey through the Cell

Join us on an inspiring journey through the human cell; the basic structural and functional unit of the human body and the home for many of our proteins. This video uses comprehensive animated graphics and microscopy images from the Cell Atlas to give you an overview of the inner universe of a human cell. Travel through a world of organelles and subcellular compartments, and get familiar with their basic structure and unique functions.