Cell line - PDCD4 - 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.	PDCD4
Gene descriptionⁱ Full gene name according to HGNC.	Programmed cell death 4
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.	Intracellular
Number of transcriptsⁱ Number of protein-coding transcripts from the gene as defined by Ensembl.	3

HUMAN PROTEIN ATLAS INFORMATIONⁱ Summary of RNA expression based on cell line data from the DepMap portal and cell line data generated within the Human Protein Atlas project.
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.	Breast cancer - Unknown function (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.	Low cancer specificity
Tau specificity scoreⁱ Tau specificity score is a numerical indicator of the specificity of the gene expression across cells or tissues. The value ranges from 0 and 1, where 0 indicates identical expression across all cells/tissue types, while 1 indicates expression in a single cell/tissue type.	0.23
Cell line distributionⁱ RNA distribution 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 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.	Detected in all
Protein evidenceⁱ Evidence score for genes based on UniProt protein existence (UniProt evidence); neXtProt protein existence (neXtProt evidence);and a Human Protein Atlas antibody- or RNA based score (HPA evidence). The avaliable scores are evidence at protein level, evidence at transcript level, no evidence, or not avaliable. Read more	Evidence at protein level

CELL LINESⁱ RNA expression data as normalized transcript per million (nTPM) values of cancer cell lines.The analyzed cell lines are grouped according to cancer type. Detailed information about the groups is revealed by hovering over the corresponding bar in the chart. More information and cell line data can be found in the Cell line section.
Cell line categories Alphabetical Expression RNA specificity:Low cancer specificity

EXPRESSION CLUSTERING & CORRELATIONⁱ

PDCD4 is part of cluster 27 Breast cancer - Unknown function with confidenceⁱ 1
687 genes in cluster

Go to interactive expression cluster page

15 nearest neighbours based on cell line 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.	Clusterⁱ ID of the expression cluster of the neighboring gene.
SHOC2	SHOC2 leucine rich repeat scaffold protein	0.4693	46
SPDEF	SAM pointed domain containing ETS transcription factor	0.4414	27
SRARP	Steroid receptor associated and regulated protein	0.4334	27
CREB3L4	CAMP responsive element binding protein 3 like 4	0.4279	27
LRRC26	Leucine rich repeat containing 26	0.4270	60
ZNF552	Zinc finger protein 552	0.4148	27
IGHM	Immunoglobulin heavy constant mu	0.4134	46
SMIM14	Small integral membrane protein 14	0.4132	46
IQSEC1	IQ motif and Sec7 domain ArfGEF 1	0.4129	55
GPER1	G protein-coupled estrogen receptor 1	0.4112	46
LRSAM1	Leucine rich repeat and sterile alpha motif containing 1	0.4063	43
TMEM210	Transmembrane protein 210	0.4046	60
RAPGEF1	Rap guanine nucleotide exchange factor 1	0.4034	55
ACER1	Alkaline ceramidase 1	0.3933	60
CRACR2B	Calcium release activated channel regulator 2B	0.3900	27

CELL LINE DATA

Alphabetical Expression Adrenocortical cancer (n=1)
Alphabetical Expression Bile duct cancer (n=7)
Alphabetical Expression Bladder cancer (n=26)
Alphabetical Expression Bone cancer (n=21)
Alphabetical Expression Brain cancer (n=80)
Alphabetical Expression Breast cancer (n=62)
Alphabetical Expression Cervical cancer (n=8)
Alphabetical Expression Colorectal cancer (n=63)
Alphabetical Expression Esophageal cancer (n=27)
Alphabetical Expression Gallbladder cancer (n=1)
Alphabetical Expression Gastric cancer (n=42)
Alphabetical Expression Head and Neck cancer (n=38)
Alphabetical Expression Kidney cancer (n=35)
Alphabetical Expression Leukemia (n=93)
Alphabetical Expression Liver cancer (n=24)
Alphabetical Expression Lung cancer (n=232)
Alphabetical Expression Lymphoma (n=76)
Alphabetical Expression Myeloma (n=34)
Alphabetical Expression Neuroblastoma (n=17)
Alphabetical Expression Non-cancerous (n=63)
Alphabetical Expression Ovarian cancer (n=59)
Alphabetical Expression Pancreatic cancer (n=46)
Alphabetical Expression Prostate cancer (n=8)
Alphabetical Expression Rhabdoid (n=14)
Alphabetical Expression Sarcoma (n=15)
Alphabetical Expression Skin cancer (n=62)
Alphabetical Expression Testis cancer (n=1)
Alphabetical Expression Thyroid cancer (n=11)
Alphabetical Expression Uncategorized (n=11)
Alphabetical Expression Uterine cancer (n=29)