Single cell type - IPCEF1 - 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.	IPCEF1
Gene descriptionⁱ Full gene name according to HGNC.	Interaction protein for cytohesin exchange factors 1
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.	8

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	Non-specific - Transcription regulation (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 (Microglial cells, Excitatory neurons, T-cells, dendritic cells)
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	Immune cell enhanced (eosinophil)
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 many
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	Group enriched (HMC-1, THP-1, U-937)
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 some
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 (Microglial cells, Excitatory neurons, T-cells, dendritic cells)

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

IPCEF1 is part of cluster 24 Non-specific - Transcription regulation with confidenceⁱ 1
415 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
ZNF831	Zinc finger protein 831	0.8923	24
RASGRP1	RAS guanyl releasing protein 1	0.8195	24
PARP8	Poly(ADP-ribose) polymerase family member 8	0.7469	24
ETS1	ETS proto-oncogene 1, transcription factor	0.7449	24
CNOT6L	CCR4-NOT transcription complex subunit 6 like	0.7410	24
CCR8	C-C motif chemokine receptor 8	0.7408	24
H2AC15	H2A clustered histone 15	0.7367	24
BICDL1	BICD family like cargo adaptor 1	0.7159	24
RGPD2	RANBP2 like and GRIP domain containing 2	0.7133	24
CCR4	C-C motif chemokine receptor 4	0.6998	24
IL7R	Interleukin 7 receptor	0.6989	24
STAT4	Signal transducer and activator of transcription 4	0.6979	24
TAFA1	TAFA chemokine like family member 1	0.6976	24
NCK2	NCK adaptor protein 2	0.6888	24
LEPROTL1	Leptin receptor overlapping transcript like 1	0.6848	24

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	1.1 nTPM
Adipose tissue	1.2 nTPM
Breast	0.9 nTPM

Alveolar cells type 1	0.0 nTPM
Lung	0.0 nTPM

Alveolar cells type 2	1.7 nTPM
Lung	1.7 nTPM

Astrocytes	7.8 nTPM
Brain	7.8 nTPM

B-cells	3.5 nTPM
Adipose tissue	16.5 nTPM
PBMC	7.1 nTPM
Lymph node	3.5 nTPM
Stomach	2.2 nTPM
Colon	1.6 nTPM
Breast	1.3 nTPM
Liver	0.9 nTPM
Bone marrow	0.8 nTPM
Spleen	0.7 nTPM
Kidney	0.0 nTPM

Dendritic cells	46.1 nTPM
Adipose tissue	106.3 nTPM
Breast	28.1 nTPM
PBMC	4.0 nTPM

Endothelial cells	2.3 nTPM
Lung	9.3 nTPM
Liver	5.5 nTPM
Eye	4.1 nTPM
Skin	3.3 nTPM
Prostate	1.6 nTPM
Endometrium	1.6 nTPM
Esophagus	1.5 nTPM
Ovary	1.4 nTPM
Placenta	1.1 nTPM
Breast	1.1 nTPM
Heart muscle	1.0 nTPM
Skeletal muscle	0.8 nTPM
Testis	0.3 nTPM
Pancreas	0.0 nTPM

Fibroblasts	1.0 nTPM
Ovary	4.1 nTPM
Stomach	3.0 nTPM
Skin	1.3 nTPM
Breast	1.2 nTPM
Heart muscle	0.6 nTPM
Esophagus	0.5 nTPM
Placenta	0.3 nTPM
Skeletal muscle	0.2 nTPM
Adipose tissue	0.2 nTPM
Lung	0.0 nTPM
Prostate	0.0 nTPM

Intestinal goblet cells	0.5 nTPM
Rectum	0.9 nTPM
Colon	0.7 nTPM
Small intestine	0.0 nTPM

Macrophages	15.2 nTPM
PBMC	68.2 nTPM
Spleen	22.8 nTPM
Breast	20.3 nTPM
Bone marrow	17.5 nTPM
Adipose tissue	16.2 nTPM
Esophagus	15.8 nTPM
Kidney	14.3 nTPM
Skeletal muscle	13.5 nTPM
Endometrium	13.0 nTPM
Stomach	8.8 nTPM
Lung	7.1 nTPM
Testis	6.9 nTPM
Prostate	2.2 nTPM
Ovary	0.8 nTPM
Pancreas	0.0 nTPM

Paneth cells	0.1 nTPM
Rectum	0.2 nTPM
Colon	0.0 nTPM
Small intestine	0.0 nTPM

Plasma cells	20.7 nTPM
Adipose tissue	97.4 nTPM
Bone marrow	5.0 nTPM
Spleen	1.3 nTPM
Esophagus	0.0 nTPM
Stomach	0.0 nTPM

Respiratory ciliated cells	1.3 nTPM
Lung	1.5 nTPM
Bronchus	1.3 nTPM

Smooth muscle cells	0.4 nTPM
Endometrium	1.2 nTPM
Skin	1.1 nTPM
Skeletal muscle	0.9 nTPM
Prostate	0.6 nTPM
Breast	0.5 nTPM
Ovary	0.3 nTPM
Heart muscle	0.2 nTPM
Pancreas	0.2 nTPM
Bronchus	0.0 nTPM
Adipose tissue	0.0 nTPM
Esophagus	0.0 nTPM

T-cells	65.5 nTPM
Adipose tissue	341.0 nTPM
Lymph node	83.7 nTPM
PBMC	72.4 nTPM
Ovary	66.8 nTPM
Spleen	60.6 nTPM
Stomach	60.3 nTPM
Bone marrow	59.4 nTPM
Liver	54.9 nTPM
Skeletal muscle	54.5 nTPM
Colon	44.7 nTPM
Esophagus	39.3 nTPM
Prostate	33.1 nTPM
Endometrium	32.4 nTPM
Breast	32.2 nTPM
Lung	28.8 nTPM
Kidney	28.0 nTPM
Skin	22.1 nTPM

Basal squamous epithelial cells	12.0 nTPM
Esophagus	12.0 nTPM

Collecting duct cells	1.8 nTPM
Kidney	1.8 nTPM

Distal tubular cells	7.9 nTPM
Kidney	7.9 nTPM

Undifferentiated cells	0.3 nTPM
Rectum	0.6 nTPM
Colon	0.3 nTPM
Small intestine	0.0 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