Single cell type - YIPF2 - 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.	YIPF2
Gene descriptionⁱ Full gene name according to HGNC.	Yip1 domain family member 2
Protein classⁱ Assigned HPA protein class(es) for the encoded protein(s). Read more	Transporters
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,Membrane
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	10

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	Spermatocytes - Spermatogenesis (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 (Syncytiotrophoblasts, Spermatocytes)
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 (Syncytiotrophoblasts, Spermatocytes)

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

YIPF2 is part of cluster 66 Spermatocytes - Spermatogenesis with confidenceⁱ 1
507 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
KDELR2	KDEL endoplasmic reticulum protein retention receptor 2	0.6850	55
PGM3	Phosphoglucomutase 3	0.6755	55
CHPF	Chondroitin polymerizing factor	0.5631	55
PYCR1	Pyrroline-5-carboxylate reductase 1	0.5386	30
SLC39A7	Solute carrier family 39 member 7	0.5210	27
SCYL1	SCY1 like pseudokinase 1	0.5197	55
TMED3	Transmembrane p24 trafficking protein 3	0.5185	55
TBL2	Transducin beta like 2	0.5181	66
GLB1L	Galactosidase beta 1 like	0.5095	66
ARFIP2	ADP ribosylation factor interacting protein 2	0.4997	27
TMBIM4	Transmembrane BAX inhibitor motif containing 4	0.4971	66
TMEM214	Transmembrane protein 214	0.4963	55
GLT8D1	Glycosyltransferase 8 domain containing 1	0.4941	66
SLC35C2	Solute carrier family 35 member C2	0.4791	47
SPATA22	Spermatogenesis associated 22	0.4762	66

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	20.5 nTPM
Breast	26.4 nTPM
Adipose tissue	14.6 nTPM

Alveolar cells type 1	16.0 nTPM
Lung	16.0 nTPM

Alveolar cells type 2	21.2 nTPM
Lung	21.2 nTPM

Astrocytes	2.6 nTPM
Brain	2.6 nTPM

B-cells	16.0 nTPM
Breast	52.2 nTPM
Liver	39.3 nTPM
PBMC	17.1 nTPM
Stomach	12.3 nTPM
Lymph node	9.4 nTPM
Bone marrow	8.1 nTPM
Spleen	6.9 nTPM
Adipose tissue	6.6 nTPM
Kidney	4.8 nTPM
Colon	3.2 nTPM

Dendritic cells	20.6 nTPM
PBMC	31.8 nTPM
Breast	17.8 nTPM
Adipose tissue	12.2 nTPM

Endothelial cells	19.2 nTPM
Placenta	36.9 nTPM
Ovary	28.8 nTPM
Pancreas	27.0 nTPM
Breast	25.3 nTPM
Eye	23.5 nTPM
Esophagus	21.6 nTPM
Prostate	21.4 nTPM
Liver	20.2 nTPM
Endometrium	19.8 nTPM
Testis	19.3 nTPM
Skeletal muscle	13.0 nTPM
Skin	7.7 nTPM
Lung	3.1 nTPM
Heart muscle	1.1 nTPM

Fibroblasts	36.0 nTPM
Placenta	96.9 nTPM
Breast	55.7 nTPM
Esophagus	49.1 nTPM
Adipose tissue	40.4 nTPM
Skeletal muscle	29.7 nTPM
Stomach	29.7 nTPM
Prostate	28.0 nTPM
Ovary	25.6 nTPM
Skin	18.9 nTPM
Lung	17.9 nTPM
Heart muscle	3.8 nTPM

Intestinal goblet cells	69.4 nTPM
Colon	91.5 nTPM
Rectum	66.8 nTPM
Small intestine	49.8 nTPM

Macrophages	20.5 nTPM
Pancreas	66.4 nTPM
Prostate	31.0 nTPM
PBMC	27.3 nTPM
Breast	24.7 nTPM
Kidney	24.2 nTPM
Ovary	21.2 nTPM
Endometrium	19.5 nTPM
Esophagus	18.9 nTPM
Testis	18.6 nTPM
Adipose tissue	15.1 nTPM
Spleen	13.5 nTPM
Skeletal muscle	11.0 nTPM
Bone marrow	10.0 nTPM
Lung	6.9 nTPM
Stomach	0.0 nTPM

Paneth cells	47.7 nTPM
Rectum	51.3 nTPM
Small intestine	48.8 nTPM
Colon	42.8 nTPM

Plasma cells	55.4 nTPM
Stomach	100.4 nTPM
Esophagus	80.1 nTPM
Spleen	43.5 nTPM
Bone marrow	31.3 nTPM
Adipose tissue	21.9 nTPM

Respiratory ciliated cells	26.1 nTPM
Bronchus	28.9 nTPM
Lung	23.3 nTPM

Smooth muscle cells	21.9 nTPM
Pancreas	64.9 nTPM
Ovary	28.2 nTPM
Breast	27.3 nTPM
Prostate	26.9 nTPM
Esophagus	18.6 nTPM
Endometrium	18.4 nTPM
Adipose tissue	16.4 nTPM
Skeletal muscle	13.4 nTPM
Bronchus	10.3 nTPM
Skin	8.7 nTPM
Heart muscle	7.4 nTPM

T-cells	13.9 nTPM
Ovary	24.5 nTPM
Prostate	23.6 nTPM
Liver	20.3 nTPM
Bone marrow	18.6 nTPM
Breast	17.3 nTPM
PBMC	17.1 nTPM
Stomach	16.8 nTPM
Colon	16.6 nTPM
Kidney	15.1 nTPM
Endometrium	14.3 nTPM
Skeletal muscle	11.2 nTPM
Spleen	11.1 nTPM
Lymph node	11.0 nTPM
Adipose tissue	9.9 nTPM
Lung	6.1 nTPM
Skin	2.3 nTPM
Esophagus	0.0 nTPM

Basal keratinocytes	6.8 nTPM
Skin	6.8 nTPM

Basal prostatic cells	41.6 nTPM
Prostate	41.6 nTPM

Basal respiratory cells	22.4 nTPM
Bronchus	22.4 nTPM

Cholangiocytes	27.1 nTPM
Liver	27.1 nTPM

Undifferentiated cells	50.6 nTPM
Rectum	61.0 nTPM
Colon	45.9 nTPM
Small intestine	44.8 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