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TRAJ24
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                                • SUMMARY

                                • TISSUE

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                                • TRAJ24
                                PROTEIN SUMMARY SECTION OVERVIEW RNA DATA
                                Amygdala Basal ganglia Thalamus Midbrain Pons Medulla oblongata Hippocampal formation Spinal cord White matter Cerebral cortex Cerebellum Choroid plexus Hypothalamus Retina Thyroid gland Parathyroid gland Adrenal gland Pituitary gland Lung Salivary gland Esophagus Tongue Stomach Small intestine Duodenum Colon Rectum Liver Gallbladder Pancreas Kidney Urinary bladder Testis Epididymis Prostate Seminal vesicle Vagina Breast Cervix Endometrium Fallopian tube Ovary Placenta Heart muscle Skeletal muscle Smooth muscle Adipose tissue Skin Bone marrow Tonsil Spleen Appendix Thymus Lymph node
                                TISSUEi

                                Summary of data presented in the Tissue section, with a representative image of protein expression (left) and an interactive chart showing the tissue-specific mRNA expression (right). The image and the chart are clickable and will redirect to more Tissue data.
                                This section contains information regarding the expression profiles of protein-coding genes in normal human tissue, both on the mRNA and protein level. The protein expression data is derived from antibody-based protein profiling using immunohistochemistry.

                                Read more
                                Cerebral cortexCerebellumChoroid plexusBasal gangliaThalamusHypothalamusMidbrainPonsMedulla oblongataHippocampal formationSpinal cordWhite matterAmygdalaRetinaThyroid glandParathyroid glandAdrenal glandPituitary glandLungSalivary glandEsophagusTongueStomachDuodenumSmall intestineColonRectumLiverGallbladderPancreasKidneyUrinary bladderTestisEpididymisSeminal vesicleProstateVaginaOvaryFallopian tubeEndometriumCervixPlacentaBreastHeart muscleSmooth muscleSkeletal muscleAdipose tissueSkinAppendixSpleenLymph nodeTonsilBone marrowThymus0246810
                                Tissue expression clusteri

                                The RNA data was used to cluster genes according to their expression across tissues. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity.

                                Read more
                                Brain - Synaptic function (mainly)
                                Tissue specificityi

                                The RNA specificity category is based on mRNA expression levels in the consensus dataset which is calculated from the RNA expression levels in samples from HPA and GTEX. The categories include: tissue enriched, group enriched, tissue enhanced, low tissue specificity and not detected.

                                Read more
                                Tissue enhanced (brain, lymphoid tissue, retina)
                                Cerebral cortexHippocampal formationAmygdalaBasal gangliaThalamusHypothalamusMidbrainCerebellumPonsMedulla oblongataSpinal cordWhite matter
                                BRAINi

                                Summary of data presented in the Brain Atlas and a representative image of mRNA expression in the human brain. The image is clickable and will redirect to more Brain Atlas data.
                                The Brain Atlas explores the protein expression in the mammalian brain by visualization and integration of data from three mammalian species (human, pig and mouse). Transcriptomics data combined with affinity-based protein in situ localization down to single cell level is available in a brain-centric sub atlas of the Human Protein Atlas.

                                Read more
                                Human regional specificityi

                                The regional specificity category is based on mRNA expression levels in the analysed brain samples, grouped into 13 main brain regions and calculated for the three different species. All brain expression profiles are based on data from HPA. The specificity categories include: regionally enriched, group enriched, regionally enhanced, low regional specificity and not detected. The classification rules are the same used for the tissue specificity category.

                                Read more
                                Low region specificity
                                SINGLE CELL TYPEi

                                Summary of data presented in the Single cell type section, with an interactive chart showing the cell type-specific mRNA expression. The chart is clickable and will redirect to more Single cell type data.
                                This section contains information about single cell type RNA expression based on scRNAseq of human tissues. The data also covers transcriptomics analysis of human blood and cultured cell lines.

                                Read more
                                Basal respiratory cellsClub cellsIonocytesRespiratory ciliated cellsMucus glandular cellsSerous glandular cellsGastric mucus-secreting cellsProximal enterocytesPaneth cellsDistal enterocytesIntestinal goblet cellsExocrine glandular cellsBasal prostatic cellsProstatic glandular cellsBreast glandular cellsBreast myoepithelial cellsEndometrial ciliated cellsGlandular and luminal cellsBasal keratinocytesSuprabasal keratinocytesBasal squamous epithelial cellsSquamous epithelial cellsAlveolar cells type 1Alveolar cells type 2Salivary duct cellsDuctal cellsHepatocytesCholangiocytesProximal tubular cellsDistal tubular cellsCollecting duct cellsThymic epithelial cellsSertoli cellsGranulosa cellsEnteroendocrine cellsPancreatic endocrine cellsLeydig cellsTheca cellsExcitatory neuronsInhibitory neuronsCone photoreceptor cellsRod photoreceptor cellsBipolar cellsHorizontal cellsAstrocytesOligodendrocyte precursor cellsOligodendrocytesMicroglial cellsMuller glia cellsSchwann cellsSpermatogoniaSpermatocytesEarly spermatidsLate spermatidsCytotrophoblastsSyncytiotrophoblastsExtravillous trophoblastsEndothelial cellsCardiomyocytesSkeletal myocytesSmooth muscle cellsAdipocytesMelanocytesFibroblastsPeritubular cellsEndometrial stromal cellsUndifferentiated cellsT-cellsB-cellsPlasma cellsNk-cellsGranulocytesMonocytesMacrophagesHofbauer cellsKupffer cellsDendritic cellsLangerhans cellsErythroid cells0246810
                                Single cell type
                                expression clusteri

                                The RNA data was used to cluster genes according to their expression across single cell types. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity.

                                Read more
                                Not detected - no cluster assigned
                                Cell type specificityi

                                The RNA specificity category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected.

                                Read more
                                Not detected
                                TISSUE CELL TYPEi

                                Summary of cell specificity data from the tissue cell type section. Listed below are the cell types in which the selected gene has predicted specificity, and images of the tissues in which they reside. Clicking here will redirect to more detailed data on the selected gene's predicted cell type specificity in different tissues.

                                The tissue cell type section provides a cell type specificity prediction for all protein coding genes. More information on the data available can be found here and a description of the analysis here.

                                Classificationi

                                Genes can have enriched specificity in different cell types in one or several tissues, or be enriched in a core cell type that appears in many different tissues.

                                Read more
                                No predicted cell type specificity
                                PATHOLOGYi

                                Summary of data presented in the Pathology section, with representative images of protein expression in cancer (left) and correlation between mRNA expression and patient survival (right). Images are clickable and redirect to pages with more Pathology data.
                                This section contains mRNA and protein expression data from 17 different forms of human cancer, as well as correlation analysis of mRNA expression and patient survival. The protein expression data is derived from antibody-based protein profiling using immunohistochemistry.

                                Read more
                                Prognostic summary Gene product is not prognostic
                                Cancer specificityi

                                Specificity of RNA expression in 17 cancer types is categorized as either cancer enriched, group enriched, cancer enhanced, low cancer specificity and not detected.

                                Read more
                                Not detected
                                Cancer distributioni

                                Distribution of RNA expression in 17 cancer types is categorized as either detected in single, detected in some, detected in many, detected in all, or not detected.

                                Read more
                                Not detected
                                DISEASE
                                Upregulated in diseasei

                                A gene is classified as upregulated in a disease if the average concentration of all samples of that disease is significantly higher (adj P-value<0.05) than the average concentration of samples of all diseases as measured by PEA . For gender specific diseases the analysis includes only samples corresponding to the same gender from the other diseases.

                                Not available
                                Disease prediction modeli

                                The disease(s) the gene is associated with and able to predict according to glmnet prediction models. To be included the gene has to be upregulated according to differential expression analysis and have more than 50% overall importance as indicated by the prediction models.

                                Not available
                                GranulocytesMonocytesT-cellsB-cellsDendritic cellsNK-cellsTotal PBMC
                                IMMUNE CELLi

                                Summary of data presented in the Immune Cell section and a representative image of mRNA expression in immune cells in the blood. The image is clickable and will redirect to more immune cell related data. The Immune Cell section contains information regarding single cell type mRNA expression profiles of protein-coding genes in various immune cells in the blood, e.g. B-cells and granulocytes.

                                Read more
                                NK-cells B-cells T-cells Granulocytes Monocytes Dendritic Cells
                                Immune cell
                                expression clusteri

                                The RNA data was used to cluster genes according to their expression across single cell types. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity.

                                Read more
                                T-cells - T-cell receptor (mainly)
                                Immune cell specificityi

                                The RNA specificity category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: cell type enriched, group enriched, cell type enhanced, low cell type specificity and not detected.

                                Read more
                                Group enriched (T-reg, memory CD8 T-cell, naive CD8 T-cell, memory CD4 T-cell, naive CD4 T-cell, MAIT T-cell)
                                BLOOD PROTEINi

                                Summary of data presented in the Blood proteins section and a representative image of the concentration in plasma and related function for the protein in plasma. The image is clickable and will redirect to more data. The Blood proteins section contains plasma levels of proteins detected in human blood and an analysis of the human secretome (including annotation of the genes predicted to be actively secreted to human blood) is also presented.

                                Read more
                                Detected in blood by immunoassayi

                                The blood-based immunoassay category applies to actively secreted proteins and is based on plasma or serum protein concentrations established with enzyme-linked immunosorbent assays, compiled from a literature search. The categories include: detected and not detected, where detection refers to a concentration found in the literature search.

                                Read more
                                No (not applicable)
                                Detected in blood by mass spectrometryi

                                Detection or not of the gene in blood, based on spectral count estimations from a publicly available mass spectrometry-based plasma proteomics data set obtained from the PeptideAtlas.

                                No
                                Detected in blood by proximity extension assayi

                                Detection or not of the gene in blood, based on proximity extension assays (Olink) for a longitudinal wellness study covering 76 individuals with three visits during two years.

                                Read more
                                No
                                SUBCELLULARi

                                Summary of data presented in the Cell Atlas and a representative image of subcellular localization.
                                The Cell Atlas provides RNA expression data derived from RNA sequencing of a large panel of cell lines and protein localization data derived from antibody-based profiling by immunofluorescence confocal microscopy, using a subset of cell lines selected based on RNA expression.

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                                All non detected compartments Detected location(s)
                                Main locationi

                                Main subcellular location(s) and reliability score(s) for the encoded protein(s) in human cells. The main location(s) may be characterized by presence in all tested cell lines and/or ihigher staining intensity compared to the potential additional location(s). If available, links to overrepresentation analyses in Reactome, a free, open-source, curated and peer reviewed biological pathway database, are provided. An analysis is done for the corresponding gene set of the proteome localizing to the main and additional locations of the protein on this page, respectively.

                                Read more
                                Not available
                                CELL LINEi

                                Summary of data presented in the Cell Line section and a representative image of mRNA expression across different human cell lines. The image is clickable and will redirect to more cell line data. This section contains information regarding mRNA expression profiles of human protein-coding genes for a large variety of cell lines.

                                Read more
                                Bile duct cancerBladder cancerBone cancerBrain cancerBreast cancerCervical cancerColorectal cancerUterine cancerEsophageal cancerGallbladder cancerGastric cancerHead and Neck cancerKidney cancerLeukemiaLiver cancerLung cancerLymphomaMyelomaNeuroblastomaNon-cancerousOvarian cancerPancreatic cancerProstate cancerRhabdoidSarcomaSkin cancerTestis cancerThyroid cancerUncategorized0246810
                                Cell line
                                expression clusteri

                                The RNA data was used to cluster genes according to their expression across cell lines. Clusters contain genes that have similar expression patterns, and each cluster has been manually annotated to describe common features in terms of function and specificity.

                                Read more
                                Lymphoid cancers - Adaptive immune response (mainly)
                                Cell line specificityi

                                RNA specificity category based on RNA sequencing data from cancer cell lines in the Human Protein Atlas grouped according to type of cancer. Genes are classified into six different categories (enriched, group enriched, enhanced, low specificity and not detected) according to their RNA expression levels across the panel of cell lines.

                                Read more
                                Not detected
                                Cell type distributioni

                                The RNA distribution category is based on mRNA expression levels in the analyzed cell types based on scRNA-seq data from normal tissues. The categories include: detected in all, detected in many, detected in some, detected in single and not detected.

                                Read more
                                Not detected
                                STRUCTURE
                                # Structures Not available
                                METABOLIC
                                Metabolic info Not available

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