Cell line - CIB3 - 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.	CIB3
Gene descriptionⁱ Full gene name according to HGNC.	Calcium and integrin binding family member 3
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 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. Read more	Granulocytes - Innate 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
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. Read more	Not detected
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. Read more	Not detected
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

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. Read more
Cell line categories Alphabetical Expression RNA specificity:Not detected

EXPRESSION CLUSTERING & CORRELATIONⁱ

CIB3 is part of cluster 62 Granulocytes - Innate immune response with confidenceⁱ 1
159 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. Read more	Clusterⁱ ID of the expression cluster of the neighboring gene. Read more
PEAK3	PEAK family member 3	0.5628	62
SIGLEC14	Sialic acid binding Ig like lectin 14	0.5488	62
C3orf80	Chromosome 3 open reading frame 80	0.5458	62
APOBR	Apolipoprotein B receptor	0.5400	62
LTC4S	Leukotriene C4 synthase	0.5387	62
CXCR1	C-X-C motif chemokine receptor 1	0.5275	62
SIGLEC12	Sialic acid binding Ig like lectin 12	0.5188	62
SIGLEC5	Sialic acid binding Ig like lectin 5	0.5086	62
RHEX	Regulator of hemoglobinization and erythroid cell expansion	0.5077	62
DPEP2	Dipeptidase 2	0.5068	66
CD244	CD244 molecule	0.5067	66
PNPLA7	Patatin like phospholipase domain containing 7	0.5030	62
GPR141	G protein-coupled receptor 141	0.5021	62
AC018755.2	Novel transcript, sense intronic to AC018755.18	0.5001	62
AIF1	Allograft inflammatory factor 1	0.4960	66

CELL LINE DATA

Alphabetical Expression Bile duct cancer (n=7)
Alphabetical Expression Bladder cancer (n=26)
Alphabetical Expression Bone cancer (n=19)
Alphabetical Expression Brain cancer (n=65)
Alphabetical Expression Breast cancer (n=50)
Alphabetical Expression Cervical cancer (n=3)
Alphabetical Expression Colorectal cancer (n=57)
Alphabetical Expression Esophageal cancer (n=27)
Alphabetical Expression Gallbladder cancer (n=1)
Alphabetical Expression Gastric cancer (n=38)
Alphabetical Expression Head and Neck cancer (n=33)
Alphabetical Expression Kidney cancer (n=31)
Alphabetical Expression Leukemia (n=88)
Alphabetical Expression Liver cancer (n=24)
Alphabetical Expression Lung cancer (n=196)
Alphabetical Expression Lymphoma (n=57)
Alphabetical Expression Myeloma (n=34)
Alphabetical Expression Neuroblastoma (n=17)
Alphabetical Expression Non-cancerous (n=60)
Alphabetical Expression Ovarian cancer (n=46)
Alphabetical Expression Pancreatic cancer (n=41)
Alphabetical Expression Prostate cancer (n=7)
Alphabetical Expression Rhabdoid (n=14)
Alphabetical Expression Sarcoma (n=14)
Alphabetical Expression Skin cancer (n=50)
Alphabetical Expression Testis cancer (n=1)
Alphabetical Expression Thyroid cancer (n=11)
Alphabetical Expression Uncategorized (n=10)
Alphabetical Expression Uterine cancer (n=28)