Single cell type - IFT52 - The Human Protein Atlas

GENERAL INFORMATIONⁱ General description of the gene and the encoded protein(s) using information from HGNC and Ensembl, as well as predictions made by the Human Protein Atlas project.
Gene nameⁱ Official gene symbol, which is typically a short form of the gene name, according to HGNC.	IFT52
Gene descriptionⁱ Full gene name according to HGNC.	Intraflagellar transport 52
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Disease related genes Human disease related genes
Predicted locationⁱ All transcripts of all genes have been analyzed regarding the location(s) of corresponding protein based on prediction methods for signal peptides and transmembrane regions. Genes with at least one transcript predicted to encode a secreted protein, according to prediction methods or to UniProt location data, have been further annotated and classified with the aim to determine if the corresponding protein(s) are secreted or actually retained in intracellular locations or membrane-attached. Remaining genes, with no transcript predicted to encode a secreted protein, will be assigned the prediction-based location(s). The annotated location overrules the predicted location, so that a gene encoding a predicted secreted protein that has been annotated as intracellular will have intracellular as the final location. Read more	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	2

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression and protein localization based on data generated within the Human Protein Atlas project.
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	Ciliated cells - Cilium organization (mainly)
Single 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	Cell type enhanced (Early spermatids)
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	Low immune cell specificity
Immune cell distributionⁱ The RNA distribution category is based on mRNA expression levels in the analyzed samples based on data from HPA. The categories include: detected in all, detected in many, detected in some, detected in single and not detected. Read more	Detected in all
Cell line specificityⁱ RNA specificity category based on RNA sequencing data from all cell lines in the Human Protein Atlas. 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	Low cell line specificity
Cell line distributionⁱ RNA distribution category based on RNA sequencing data from all cell lines in the Human Protein Atlas. Genes are classified into five different categories (detected in all, detected in many, detected in some, detected in single and not detected) according to their pattern of detected RNA expression across the panel of cell lines. Read more	Detected in all
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); a Human Protein Atlas antibody- or RNA based score (HPA evidence); and evidence based on PeptideAtlas (MS evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable. Read more	Evidence at protein level

SINGLE CELL TYPESⁱ A summary of single cell RNA (nTPM) from all single cell types. Color-coding is based on cell type groups, each consisting of cell types with functional features in common.
Single cell types Group Expression Alphabetical RNA single cell type specificity: Cell type enhanced (Early spermatids)

SINGLE CELL TISSUES OVERVIEWⁱ An overview of all tissues where single cell type expression has been analyzed. Each tissue name and corresponding UMAP plot is clickable and redirects to the selected tissue.
Adipose tissue Bone marrow Brain Breast Bronchus Colon Endometrium Esophagus Eye Heart muscle Kidney Liver Lung Lymph node Ovary Pancreas Placenta Prostate Rectum Skeletal muscle Skin Small intestine Spleen Stomach Testis

EXPRESSION CLUSTERING & CORRELATIONⁱ

IFT52 is part of cluster 49 Ciliated cells - Cilium organization with confidenceⁱ 1
457 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on single cell type RNA expression

Neighbourⁱ Gene name according to HGNC.	Descriptionⁱ Gene description according to HGNC.	Correlationⁱ Correlation between the selected gene and neighboring gene. Correlation is calculated as Spearman correlation in PCA space based on the RNA-seq expression data. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
CCDC74A	Coiled-coil domain containing 74A	0.4989	49
KATNB1	Katanin regulatory subunit B1	0.4959	49
ZSCAN1	Zinc finger and SCAN domain containing 1	0.4958	49
LRRC6	Leucine rich repeat containing 6	0.4902	49
PPIL6	Peptidylprolyl isomerase like 6	0.4847	49
CBY1	Chibby family member 1, beta catenin antagonist	0.4731	49
TEKT1	Tektin 1	0.4535	49
MEIG1	Meiosis/spermiogenesis associated 1	0.4488	49
DYNC2LI1	Dynein cytoplasmic 2 light intermediate chain 1	0.4485	49
C1orf189	Chromosome 1 open reading frame 189	0.4472	49
CCDC74B	Coiled-coil domain containing 74B	0.4471	29
C4orf47	Chromosome 4 open reading frame 47	0.4445	49
ZBBX	Zinc finger B-box domain containing	0.4398	49
MAGEL2	MAGE family member L2	0.4347	40
TTC26	Tetratricopeptide repeat domain 26	0.4341	49

SINGLE CELL TISSUESⁱ Single cell RNA levels of annotated cell type clusters are shown separately for each analyzed tissue. For easier navigation across tissues, use the above Single cell tissue overview, where each tissue name and UMAP plot is clickable and redirects to the selected tissue, alternatively the grey browser on the left side of the window. Barchart shows nTPM levels in each annotated cluster of single cells. To the left, a UMAP plot illustrates the RNA expression profile. The tissue name and plots are clickable and redirect to a more detailed interactive page. Color-coding is based on cell type groups, each consisting of cell types with functional features in common. Please note that the same cell type may be found in several clusters.
Cluster Expression Alphabetical Adipose tissue
Cluster Expression Alphabetical Bone marrow
Cluster Expression Alphabetical Brain
Cluster Expression Alphabetical Breast
Cluster Expression Alphabetical Bronchus
Cluster Expression Alphabetical Colon
Cluster Expression Alphabetical Endometrium
Cluster Expression Alphabetical Esophagus
Cluster Expression Alphabetical Eye
Cluster Expression Alphabetical Heart muscle
Cluster Expression Alphabetical Kidney
Cluster Expression Alphabetical Liver
Cluster Expression Alphabetical Lung
Cluster Expression Alphabetical Lymph node
Cluster Expression Alphabetical Ovary
Cluster Expression Alphabetical Pancreas
Cluster Expression Alphabetical Placenta
Cluster Expression Alphabetical Prostate
Cluster Expression Alphabetical Rectum
Cluster Expression Alphabetical Skeletal muscle
Cluster Expression Alphabetical Skin
Cluster Expression Alphabetical Small intestine
Cluster Expression Alphabetical Spleen
Cluster Expression Alphabetical Stomach
Cluster Expression Alphabetical Testis

BLOODⁱ

Single cell data

Cluster

Expression

Alphabetical

PBMC

Flow sorted data

Lineage

Expression

Alphabetical

CELL LINESⁱ

Organ

Expression

Alphabetical

Adipocytes	21.1 nTPM
Breast	25.1 nTPM
Adipose tissue	17.1 nTPM

Alveolar cells type 1	6.4 nTPM
Lung	6.4 nTPM

Alveolar cells type 2	13.1 nTPM
Lung	13.1 nTPM

Astrocytes	11.4 nTPM
Brain	11.4 nTPM

B-cells	13.7 nTPM
Bone marrow	19.6 nTPM
Stomach	19.5 nTPM
Breast	18.7 nTPM
PBMC	18.6 nTPM
Spleen	16.0 nTPM
Lymph node	12.7 nTPM
Liver	12.1 nTPM
Colon	8.0 nTPM
Adipose tissue	7.5 nTPM
Kidney	4.8 nTPM

Dendritic cells	16.0 nTPM
PBMC	16.0 nTPM
Breast	16.0 nTPM
Adipose tissue	15.9 nTPM

Endothelial cells	18.1 nTPM
Placenta	26.1 nTPM
Testis	24.9 nTPM
Ovary	23.4 nTPM
Pancreas	23.1 nTPM
Breast	21.6 nTPM
Liver	21.1 nTPM
Eye	21.0 nTPM
Skin	19.9 nTPM
Skeletal muscle	17.3 nTPM
Esophagus	14.5 nTPM
Endometrium	13.0 nTPM
Prostate	10.5 nTPM
Lung	9.3 nTPM
Heart muscle	8.2 nTPM

Fibroblasts	25.3 nTPM
Ovary	36.3 nTPM
Adipose tissue	34.4 nTPM
Breast	32.1 nTPM
Skin	30.9 nTPM
Placenta	29.7 nTPM
Esophagus	27.6 nTPM
Skeletal muscle	24.8 nTPM
Lung	22.4 nTPM
Stomach	19.3 nTPM
Heart muscle	11.2 nTPM
Prostate	9.9 nTPM

Intestinal goblet cells	11.0 nTPM
Rectum	19.0 nTPM
Colon	8.5 nTPM
Small intestine	5.7 nTPM

Macrophages	13.3 nTPM
Stomach	23.5 nTPM
Ovary	19.3 nTPM
Esophagus	17.3 nTPM
Testis	16.3 nTPM
Bone marrow	16.3 nTPM
Adipose tissue	15.2 nTPM
Breast	14.2 nTPM
Lung	13.8 nTPM
Kidney	13.7 nTPM
Skeletal muscle	13.6 nTPM
Pancreas	12.8 nTPM
Endometrium	11.3 nTPM
Spleen	7.2 nTPM
Prostate	5.7 nTPM
PBMC	0.0 nTPM

Paneth cells	10.1 nTPM
Rectum	12.4 nTPM
Small intestine	11.3 nTPM
Colon	6.5 nTPM

Plasma cells	13.5 nTPM
Stomach	19.9 nTPM
Spleen	19.8 nTPM
Bone marrow	18.2 nTPM
Adipose tissue	9.7 nTPM
Esophagus	0.0 nTPM

Respiratory ciliated cells	49.0 nTPM
Lung	56.9 nTPM
Bronchus	41.2 nTPM

Smooth muscle cells	24.8 nTPM
Ovary	39.5 nTPM
Breast	32.5 nTPM
Adipose tissue	29.0 nTPM
Heart muscle	27.3 nTPM
Skin	24.8 nTPM
Skeletal muscle	23.1 nTPM
Pancreas	21.9 nTPM
Esophagus	21.7 nTPM
Bronchus	20.7 nTPM
Endometrium	20.0 nTPM
Prostate	12.5 nTPM

T-cells	12.1 nTPM
Stomach	19.4 nTPM
Kidney	18.5 nTPM
Lung	15.2 nTPM
Liver	14.8 nTPM
Spleen	14.6 nTPM
Breast	13.4 nTPM
Lymph node	12.5 nTPM
Bone marrow	12.5 nTPM
Colon	12.4 nTPM
Skin	12.4 nTPM
Adipose tissue	12.4 nTPM
Ovary	11.1 nTPM
PBMC	10.9 nTPM
Skeletal muscle	10.7 nTPM
Endometrium	8.6 nTPM
Esophagus	6.6 nTPM
Prostate	0.0 nTPM

Basal squamous epithelial cells	12.0 nTPM
Esophagus	12.0 nTPM

Cholangiocytes	11.5 nTPM
Liver	11.5 nTPM

Collecting duct cells	7.3 nTPM
Kidney	7.3 nTPM

Early spermatids	78.4 nTPM
Testis	78.4 nTPM

Undifferentiated cells	10.3 nTPM
Rectum	13.1 nTPM
Small intestine	11.2 nTPM
Colon	6.5 nTPM

Adipose tissue

Bone marrow

Brain

Breast

Bronchus

Colon

Endometrium

Esophagus

Eye

Heart muscle

Kidney

Liver

Lung

Lymph node

Ovary

Pancreas

Placenta

Prostate

Rectum

Skeletal muscle

Skin

Small intestine

Spleen

Stomach

Testis

PBMC