Details for: FOXN1

Gene ID: 8456

Symbol: FOXN1

Ensembl ID: ENSG00000109101

Description: forkhead box N1

Associated with

Cells (max top 100)

(Cell Significance Index and respective Thresholds are uniquely calculated using our advanced thresholding algorithms to reveal cell-specific gene markers)

  • Cell Name: epithelial cell of thymus (CL0002293)
    Fold Change: 5.2788
    Cell Significance Index: 40.5900
  • Cell Name: cortical thymic epithelial cell (CL0002364)
    Fold Change: 3.5246
    Cell Significance Index: 29.1500
  • Cell Name: enterocyte of epithelium of small intestine (CL1000334)
    Fold Change: 2.0813
    Cell Significance Index: 59.9700
  • Cell Name: transit amplifying cell of small intestine (CL0009012)
    Fold Change: 1.9770
    Cell Significance Index: 41.0100
  • Cell Name: enteroendocrine cell of small intestine (CL0009006)
    Fold Change: 1.8162
    Cell Significance Index: 45.4000
  • Cell Name: epidermal cell (CL0000362)
    Fold Change: 1.7986
    Cell Significance Index: 4.0500
  • Cell Name: intestinal tuft cell (CL0019032)
    Fold Change: 1.6176
    Cell Significance Index: 99.1800
  • Cell Name: CD14-low, CD16-positive monocyte (CL0002396)
    Fold Change: 1.1409
    Cell Significance Index: 27.6400
  • Cell Name: granular cell of epidermis (CL0002189)
    Fold Change: 1.0772
    Cell Significance Index: 1.2400
  • Cell Name: thymocyte (CL0000893)
    Fold Change: 0.9572
    Cell Significance Index: 12.1000
  • Cell Name: medial ganglionic eminence derived interneuron (CL4023063)
    Fold Change: 0.9231
    Cell Significance Index: 13.2200
  • Cell Name: corneal epithelial cell (CL0000575)
    Fold Change: 0.5999
    Cell Significance Index: 8.5400
  • Cell Name: BEST4+ enteroycte (CL4030026)
    Fold Change: 0.5010
    Cell Significance Index: 7.5500
  • Cell Name: transit amplifying cell of colon (CL0009011)
    Fold Change: 0.4713
    Cell Significance Index: 15.1000
  • Cell Name: enteroendocrine cell of colon (CL0009042)
    Fold Change: 0.4560
    Cell Significance Index: 86.7700
  • Cell Name: basal epithelial cell of tracheobronchial tree (CL0002329)
    Fold Change: 0.4489
    Cell Significance Index: 12.5500
  • Cell Name: bladder urothelial cell (CL1001428)
    Fold Change: 0.3384
    Cell Significance Index: 17.5800
  • Cell Name: tuft cell of colon (CL0009041)
    Fold Change: 0.2700
    Cell Significance Index: 243.7700
  • Cell Name: conjunctival epithelial cell (CL1000432)
    Fold Change: 0.2639
    Cell Significance Index: 3.6000
  • Cell Name: umbrella cell of urothelium (CL4030056)
    Fold Change: 0.2628
    Cell Significance Index: 2.4200
  • Cell Name: colon goblet cell (CL0009039)
    Fold Change: 0.2374
    Cell Significance Index: 23.4800
  • Cell Name: cytotoxic T cell (CL0000910)
    Fold Change: 0.2189
    Cell Significance Index: 3.1900
  • Cell Name: intestinal crypt stem cell of small intestine (CL0009017)
    Fold Change: 0.2050
    Cell Significance Index: 4.3700
  • Cell Name: professional antigen presenting cell (CL0000145)
    Fold Change: 0.1770
    Cell Significance Index: 1.6000
  • Cell Name: epithelial cell of small intestine (CL0002254)
    Fold Change: 0.1755
    Cell Significance Index: 28.5500
  • Cell Name: epithelial cell of esophagus (CL0002252)
    Fold Change: 0.1702
    Cell Significance Index: 1.1300
  • Cell Name: intestinal crypt stem cell of colon (CL0009043)
    Fold Change: 0.1496
    Cell Significance Index: 16.2800
  • Cell Name: enterocyte of epithelium of large intestine (CL0002071)
    Fold Change: 0.1447
    Cell Significance Index: 6.5600
  • Cell Name: oral mucosa squamous cell (CL1001576)
    Fold Change: 0.1117
    Cell Significance Index: 0.9600
  • Cell Name: hair follicular keratinocyte (CL2000092)
    Fold Change: 0.1011
    Cell Significance Index: 44.6900
  • Cell Name: microfold cell of epithelium of small intestine (CL1000353)
    Fold Change: 0.0871
    Cell Significance Index: 6.0300
  • Cell Name: epithelial cell of prostate (CL0002231)
    Fold Change: 0.0746
    Cell Significance Index: 0.4600
  • Cell Name: gut absorptive cell (CL0000677)
    Fold Change: 0.0668
    Cell Significance Index: 4.0100
  • Cell Name: epithelial cell of urethra (CL1000296)
    Fold Change: 0.0372
    Cell Significance Index: 0.2300
  • Cell Name: basal cell of urothelium (CL1000486)
    Fold Change: 0.0291
    Cell Significance Index: 3.5800
  • Cell Name: paneth cell of epithelium of small intestine (CL1000343)
    Fold Change: 0.0129
    Cell Significance Index: 0.2800
  • Cell Name: intermediate cell of urothelium (CL4030055)
    Fold Change: 0.0080
    Cell Significance Index: 1.4400
  • Cell Name: small intestine goblet cell (CL1000495)
    Fold Change: 0.0080
    Cell Significance Index: 0.2800
  • Cell Name: basal cell of prostate epithelium (CL0002341)
    Fold Change: 0.0015
    Cell Significance Index: 0.0400
  • Cell Name: keratinocyte (CL0000312)
    Fold Change: -0.0008
    Cell Significance Index: -0.0200
  • Cell Name: epithelial cell of stomach (CL0002178)
    Fold Change: -0.0010
    Cell Significance Index: -0.1200
  • Cell Name: anterior lens cell (CL0002223)
    Fold Change: -0.0010
    Cell Significance Index: -1.8400
  • Cell Name: lens epithelial cell (CL0002224)
    Fold Change: -0.0013
    Cell Significance Index: -2.0600
  • Cell Name: secondary lens fiber (CL0002225)
    Fold Change: -0.0015
    Cell Significance Index: -2.0600
  • Cell Name: pigmented epithelial cell (CL0000529)
    Fold Change: -0.0017
    Cell Significance Index: -3.1700
  • Cell Name: eukaryotic cell (CL0000255)
    Fold Change: -0.0023
    Cell Significance Index: -0.1000
  • Cell Name: kidney loop of Henle cortical thick ascending limb epithelial cell (CL1001109)
    Fold Change: -0.0030
    Cell Significance Index: -2.2200
  • Cell Name: pancreatic A cell (CL0000171)
    Fold Change: -0.0032
    Cell Significance Index: -2.4000
  • Cell Name: pulmonary alveolar epithelial cell (CL0000322)
    Fold Change: -0.0040
    Cell Significance Index: -3.0300
  • Cell Name: type B pancreatic cell (CL0000169)
    Fold Change: -0.0043
    Cell Significance Index: -2.4300
  • Cell Name: ciliary muscle cell (CL1000443)
    Fold Change: -0.0055
    Cell Significance Index: -2.4900
  • Cell Name: cell in vitro (CL0001034)
    Fold Change: -0.0058
    Cell Significance Index: -3.1600
  • Cell Name: pancreatic ductal cell (CL0002079)
    Fold Change: -0.0061
    Cell Significance Index: -0.7000
  • Cell Name: fibro/adipogenic progenitor cell (CL0009099)
    Fold Change: -0.0069
    Cell Significance Index: -0.3500
  • Cell Name: neuron associated cell (CL0000095)
    Fold Change: -0.0084
    Cell Significance Index: -0.3400
  • Cell Name: pancreatic D cell (CL0000173)
    Fold Change: -0.0118
    Cell Significance Index: -2.5000
  • Cell Name: neoplastic cell (CL0001063)
    Fold Change: -0.0120
    Cell Significance Index: -2.3800
  • Cell Name: taste receptor cell (CL0000209)
    Fold Change: -0.0138
    Cell Significance Index: -0.1600
  • Cell Name: pancreatic acinar cell (CL0002064)
    Fold Change: -0.0144
    Cell Significance Index: -2.4600
  • Cell Name: L2/3-6 intratelencephalic projecting glutamatergic neuron (CL4023040)
    Fold Change: -0.0146
    Cell Significance Index: -2.9200
  • Cell Name: pigmented ciliary epithelial cell (CL0002303)
    Fold Change: -0.0160
    Cell Significance Index: -2.3300
  • Cell Name: stratified epithelial cell (CL0000079)
    Fold Change: -0.0199
    Cell Significance Index: -0.7300
  • Cell Name: acinar cell of salivary gland (CL0002623)
    Fold Change: -0.0202
    Cell Significance Index: -0.9400
  • Cell Name: sebum secreting cell (CL0000317)
    Fold Change: -0.0204
    Cell Significance Index: -1.4400
  • Cell Name: erythrocyte (CL0000232)
    Fold Change: -0.0235
    Cell Significance Index: -0.6000
  • Cell Name: basal cell of epidermis (CL0002187)
    Fold Change: -0.0237
    Cell Significance Index: -0.3600
  • Cell Name: stromal cell of ovary (CL0002132)
    Fold Change: -0.0241
    Cell Significance Index: -3.3100
  • Cell Name: squamous epithelial cell (CL0000076)
    Fold Change: -0.0255
    Cell Significance Index: -0.3100
  • Cell Name: abnormal cell (CL0001061)
    Fold Change: -0.0281
    Cell Significance Index: -2.8700
  • Cell Name: kidney loop of Henle descending limb epithelial cell (CL1001021)
    Fold Change: -0.0317
    Cell Significance Index: -2.5100
  • Cell Name: smooth muscle cell of sphincter of pupil (CL0002243)
    Fold Change: -0.0319
    Cell Significance Index: -3.3200
  • Cell Name: cortical cell of adrenal gland (CL0002097)
    Fold Change: -0.0336
    Cell Significance Index: -0.9000
  • Cell Name: basal cell of epithelium of trachea (CL1000348)
    Fold Change: -0.0384
    Cell Significance Index: -0.3300
  • Cell Name: hippocampal granule cell (CL0001033)
    Fold Change: -0.0399
    Cell Significance Index: -2.6800
  • Cell Name: epithelial cell (CL0000066)
    Fold Change: -0.0446
    Cell Significance Index: -0.4700
  • Cell Name: forebrain neuroblast (CL1000042)
    Fold Change: -0.0451
    Cell Significance Index: -2.7700
  • Cell Name: luminal adaptive secretory precursor cell of mammary gland (CL4033057)
    Fold Change: -0.0495
    Cell Significance Index: -2.3300
  • Cell Name: caudal ganglionic eminence derived cortical interneuron (CL4023064)
    Fold Change: -0.0506
    Cell Significance Index: -1.0100
  • Cell Name: retinal blood vessel endothelial cell (CL0002585)
    Fold Change: -0.0557
    Cell Significance Index: -0.7200
  • Cell Name: skeletal muscle fiber (CL0008002)
    Fold Change: -0.0591
    Cell Significance Index: -1.5200
  • Cell Name: basal cell (CL0000646)
    Fold Change: -0.0613
    Cell Significance Index: -0.7300
  • Cell Name: mesonephric nephron tubule epithelial cell (CL1000022)
    Fold Change: -0.0682
    Cell Significance Index: -2.3700
  • Cell Name: CD4-positive, alpha-beta thymocyte (CL0000810)
    Fold Change: -0.0685
    Cell Significance Index: -1.1800
  • Cell Name: megakaryocyte-erythroid progenitor cell (CL0000050)
    Fold Change: -0.0693
    Cell Significance Index: -0.9500
  • Cell Name: placental villous trophoblast (CL2000060)
    Fold Change: -0.0719
    Cell Significance Index: -1.9200
  • Cell Name: megakaryocyte (CL0000556)
    Fold Change: -0.0747
    Cell Significance Index: -1.2100
  • Cell Name: retinal progenitor cell (CL0002672)
    Fold Change: -0.0756
    Cell Significance Index: -4.2400
  • Cell Name: L5 extratelencephalic projecting glutamatergic cortical neuron (CL4023041)
    Fold Change: -0.0788
    Cell Significance Index: -2.7600
  • Cell Name: large intestine goblet cell (CL1000320)
    Fold Change: -0.0803
    Cell Significance Index: -0.8700
  • Cell Name: kidney epithelial cell (CL0002518)
    Fold Change: -0.0857
    Cell Significance Index: -2.5300
  • Cell Name: obsolete epithelial cell of alveolus of lung (CL0010003)
    Fold Change: -0.0882
    Cell Significance Index: -2.2000
  • Cell Name: mast cell (CL0000097)
    Fold Change: -0.0904
    Cell Significance Index: -1.1900
  • Cell Name: indirect pathway medium spiny neuron (CL4023029)
    Fold Change: -0.0920
    Cell Significance Index: -4.0700
  • Cell Name: hematopoietic stem cell (CL0000037)
    Fold Change: -0.0921
    Cell Significance Index: -1.5800
  • Cell Name: L6b glutamatergic cortical neuron (CL4023038)
    Fold Change: -0.0925
    Cell Significance Index: -3.0300
  • Cell Name: Purkinje cell (CL0000121)
    Fold Change: -0.0927
    Cell Significance Index: -2.0300
  • Cell Name: corticothalamic-projecting glutamatergic cortical neuron (CL4023013)
    Fold Change: -0.0936
    Cell Significance Index: -2.9800
  • Cell Name: mesangial cell (CL0000650)
    Fold Change: -0.0948
    Cell Significance Index: -1.2000
  • Cell Name: hippocampal pyramidal neuron (CL1001571)
    Fold Change: -0.0967
    Cell Significance Index: -2.7600
  • Cell Name: decidual cell (CL2000002)
    Fold Change: -0.1004
    Cell Significance Index: -1.6100

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this specific cell.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Other Information

**Key Characteristics:** 1. **Transcriptional regulation:** FOXN1 belongs to the forkhead box (FOX) family of transcription factors, which are known for their role in regulating gene expression. FOXN1 specifically binds to the promoter regions of target genes, influencing their transcription. 2. **Cell type specificity:** FOXN1 expression is highly restricted to specific cell types, including cortical thymic epithelial cells, T cells, and epithelial cells of the skin and gut. 3. **Thymic development:** FOXN1 is critical for thymocyte development and selection, ensuring the proper maturation of T cells. 4. **Epithelial homeostasis:** FOXN1 regulates the differentiation and maintenance of epithelial cells, including those in the skin, gut, and thymus. **Pathways and Functions:** 1. **Thymocyte development:** FOXN1 regulates the expression of genes involved in thymocyte development, including those involved in the Notch signaling pathway. 2. **Epithelial cell differentiation:** FOXN1 promotes the differentiation of epithelial cells into specific cell types, such as keratinocytes and goblet cells. 3. **Cell migration and proliferation:** FOXN1 influences the migration and proliferation of cells, including thymocytes and epithelial cells. 4. **Chromatin remodeling:** FOXN1 interacts with chromatin remodeling complexes to regulate gene expression. **Clinical Significance:** Dysregulation of FOXN1 has been implicated in various immune-related disorders, including: 1. **Autoimmune diseases:** Mutations in FOXC1, the gene encoding FOXN1, have been associated with autoimmune diseases, such as autoimmune thyroid disease and type 1 diabetes. 2. **Immunodeficiency:** FOXN1 mutations have been linked to immunodeficiency disorders, including severe combined immunodeficiency (SCID). 3. **Cancer:** FOXN1 has been implicated in the development and progression of certain cancers, including lymphoma and leukemia. In conclusion, FOXN1 is a critical transcription factor that regulates the development and maintenance of the immune system. Its dysregulation has significant clinical implications, highlighting the need for further research into the molecular mechanisms underlying FOXN1-mediated immune responses.

Genular Protein ID: 1102969575

Symbol: FOXN1_HUMAN

Name: Forkhead box protein N1

UniProtKB Accession Codes:

O15353 B2R9Q7 O15352

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 1 CDD 1 CTD 1 ChiTaRS 1 DNASU 1 DisGeNET 1 EMBL 9 Ensembl 3 ExpressionAtlas 1 GO 20 Gene3D 1 GeneCards 1 GeneTree 1 GeneWiki 1 GenomeRNAi 1 HGNC 1 HOGENOM 1 HPA 1 InParanoid 1 IntAct 1 InterPro 6 KEGG 1 MANE-Select 1 MIM 7 MINT 1 MalaCards 1 MassIVE 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 Orphanet 1 OrthoDB 1 PANTHER 2 PDB 2 PDBsum 2 PRINTS 1 PRO 1 PROSITE 2 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 Pfam 1 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 1 RNAct 1 RefSeq 2 SIGNOR 1 SMART 1 SMR 1 STRING 1 SUPFAM 1 SignaLink 1 TreeFam 1 UCSC 1 VEuPathDB 1 eggNOG 1 iPTMnet 1 jPOST 1 neXtProt 1

Citations:

PubMed ID: 9321431

Title: Characterization of mouse and human nude genes.

PubMed ID: 9321431

DOI: 10.1007/s002510050312

PubMed ID: 14702039

Title: Complete sequencing and characterization of 21,243 full-length human cDNAs.

PubMed ID: 14702039

DOI: 10.1038/ng1285

PubMed ID: 10206641

Title: Exposing the human nude phenotype.

PubMed ID: 10206641

DOI: 10.1038/18997

PubMed ID: 21507891

Title: FOXN1 mutation abrogates prenatal T-cell development in humans.

PubMed ID: 21507891

DOI: 10.1136/jmg.2011.089532

PubMed ID: 25173801

Title: A novel mutation in FOXN1 resulting in SCID: a case report and literature review.

PubMed ID: 25173801

DOI: 10.1016/j.clim.2014.08.005

PubMed ID: 23874334

Title: FOXN1: a master regulator gene of thymic epithelial development program.

PubMed ID: 23874334

DOI: 10.3389/fimmu.2013.00187

PubMed ID: 24432845

Title: FOXN1 in organ development and human diseases.

PubMed ID: 24432845

DOI: 10.3109/08830185.2013.870171

PubMed ID: 20978268

Title: First use of thymus transplantation therapy for FOXN1 deficiency (nude/SCID): a report of 2 cases.

PubMed ID: 20978268

DOI: 10.1182/blood-2010-06-292490

PubMed ID: 28636882

Title: FOXN1 Italian founder mutation in Indian family: Implications in prenatal diagnosis.

PubMed ID: 28636882

DOI: 10.1016/j.gene.2017.06.033

PubMed ID: 31447097

Title: Heterozygous FOXN1 variants cause low TRECs and severe T cell lymphopenia, revealing a crucial role of FOXN1 in supporting early thymopoiesis.

PubMed ID: 31447097

DOI: 10.1016/j.ajhg.2019.07.014

PubMed ID: 31566583

Title: FOXN1 compound heterozygous mutations cause selective thymic hypoplasia in humans.

PubMed ID: 31566583

DOI: 10.1172/jci127565

Sequence Information:

  • Length: 648
  • Mass: 68925
  • Checksum: F32F4C95627E60DE
  • Sequence:
    • MVSLPPPQSD VTLPGPTRLE GERQGDLMQA PGLPGSPAPQ SKHAGFSCSS FVSDGPPERT 
PSLPPHSPRI ASPGPEQVQG HCPAGPGPGP FRLSPSDKYP GFGFEEAAAS SPGRFLKGSH 
APFHPYKRPF HEDVFPEAET TLALKGHSFK TPGPLEAFEE IPVDVAEAEA FLPGFSAEAW 
CNGLPYPSQE HGPQVLGSEV KVKPPVLESG AGMFCYQPPL QHMYCSSQPP FHQYSPGGGS 
YPIPYLGSSH YQYQRMAPQA STDGHQPLFP KPIYSYSILI FMALKNSKTG SLPVSEIYNF 
MTEHFPYFKT APDGWKNSVR HNLSLNKCFE KVENKSGSSS RKGCLWALNP AKIDKMQEEL 
QKWKRKDPIA VRKSMAKPEE LDSLIGDKRE KLGSPLLGCP PPGLSGSGPI RPLAPPAGLS 
PPLHSLHPAP GPIPGKNPLQ DLLMGHTPSC YGQTYLHLSP GLAPPGPPQP LFPQPDGHLE 
LRAQPGTPQD SPLPAHTPPS HSAKLLAEPS PARTMHDTLL PDGDLGTDLD AINPSLTDFD 
FQGNLWEQLK DDSLALDPLV LVTSSPTSSS MPPPQPPPHC FPPGPCLTET GSGAGDLAAP 
GSGGSGALGD LHLTTLYSAF MELEPTPPTA PAGPSVYLSP SSKPVALA

Database document:

This is a preview of the gene's schema. Only a few entries are kept for 'singleCellExpressions,' 'mRNAExpressions,' and other large data arrays for visualization purposes. You can zoom in with the mouse wheel for a closer view, and the text will adjust automatically if necessary. For the full schema, download it here.