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TFF1 Gene

protein-coding   GIFtS: 62

GC21M042655
trefoil factor 1
(Previous names: breast cancer, estrogen-inducible sequence expressed in )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: BCEI)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase, and/or 9Nature:405,311-319 and CroW21)
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Aliases
BCEI 2, 3, 5
D21S21 1, 2
HP1.A 1, 2
HPS2 1, 2
PNR-2 3
PS2 3
hP1.A 3
pNR-2 1, 2
pS2 1, 2
Descriptions
Breast cancer estrogen-inducible protein 3
Polypeptide P1.A 3
Protein pS2 3
breast cancer estrogen-inducible sequence 2
breast cancer, estrogen-inducible sequence expressed in 1
gastrointestinal trefoil protein pS2 2
trefoil factor 1 2
trefoil factor, BCE1, human pS2 induced by estrogen from
human breast cancer cell line M 9
External Ids
HGNC: 117551
Entrez Gene: 70312
UniProtKB: P041553
Ensembl: ENSG000001601827
Search outside databases for aliases for TFF1 gene

Previous GC identifers: GC21M040330 GC21M042676

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for TFF1:
Members of the trefoil family are characterized by having at least one copy of the trefoil motif, a
40-amino acid domain that contains three conserved disulfides. They are stable secretory proteins
expressed in gastrointestinal mucosa. Their functions are not defined, but they may protect the
mucosa from insults, stabilize the mucus layer, and affect healing of the epithelium. This gene,
which is expressed in the gastric mucosa, has also been studied because of its expression in human
tumors. This gene and two other related trefoil family member genes are found in a cluster on
chromosome 21. [provided by RefSeq]

UniProtKB/Swiss-Prot: TFF1_HUMAN, P04155
Function: Stabilizer of the mucous gel overlying the gastrointestinal mucosa that provides a
physical barrier against various noxious agents. May inhibit the growth of calcium oxalate
crystals in urine

Gene Wiki entry for TFF1 (Trefoil_factor_1)

(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 36),
and/or miRBase,
Genomic Views according to UCSC and Ensembl, Transcription factor binding sites according to SABiosciences, Whole Chromsome Sequence According to Nature (Cited Here with Permission):405,311-319 and CroW21)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 21q22.3   Ensembl cytogenetic band:  21q22.3   HGNC cytogenetic band: 21q22.3
Nature(405: 311-319) cytogenetic band:   21q22.3
TFF1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
GeneLoc gene densities for chromosome 21         GeneLoc Exon Structure

(about GC identifiers)
GC21M042655:   GeneLoc Nature:405,311-319
Start:
42,655,460 bp from pter       29,329,717 bp from centromere
End:
42,659,713 bp from pter 29,333,970 bp from centromere
Size:
4,254 bases 4,254 bases
Orientation:
minus strand minus strand
RefSeq DNA sequence:
NC_000021.7  NT_030188.4  

Whole chromosome sequencing:
cDNA sequence: X00474
genomic clones: KB169B4

(According to 1UniProtKB, and/or Ensembl, Phosphorylation sites according to 2Phosphosite, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Enzo Life Sciences, Abnova, OriGene and/or, Abcam,
Biochemical Assays by Invitrogen, Millipore, R&D Systems, Cell Signaling Technology, and/or Enzo Life Sciences, Ontologies according to Gene Ontology Consortium 01 Apr 2009 and Entrez Gene, Antibodies by Invitrogen, Millipore, Sigma-Aldrich, R&D Systems, Cell Signaling Technology, Abcam, Abnova, and/or Novus Biologicals)
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UniProtKB/Swiss-Prot: TFF1_HUMAN, P04155 (See protein sequence)
Recommended Name: Trefoil factor 1 precursor  
Size: 84 amino acids; 9150 Da
Subunit: Heterodimer with GKN2; disulfide linked
Subcellular location: Secreted
PDB structure from and Proteopedia :
1HI7 (3D)    1PS2 (3D)    

REFSEQ proteins: NP_003216.1  

ENSEMBL proteins: 
ENSP00000291527 


Human Recombinant Proteins 
Browse Drug Discovery Central at Invitrogen for human recombinant proteins
Browse Purified and Recombinant Proteins at Millipore
Browse Human Recombinant Proteins at Sigma-Aldrich  
Browse R&D Systems for human recombinant proteins
Browse recombinant and purified proteins available from Enzo Life Sciences
Recombinant Proteins from Abcam (Estrogen Inducible Protein pS2)
Human Recombinant Proteins from Abnova (TFF1)
                Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

1 Gene Ontology (GO) cellular component term (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005576 extracellular region IEA--
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Antibodies for TFF1: 
Invitrogen Antibodies for TFF1
Browse Millipore's Extensive Line of Mono- and Polyclonal Antibodies
Sigma-Aldrich Antibodies for TFF1
Browse R&D Systems for Antibodies
Antibodies from Abcam (Estrogen Inducible Protein pS2), each with their AbpromiseSM
Monoclonal and Polyclonal Antibodies from Abnova (TFF1)
Novus Biologicals Antibodies for TFF1

Assays for TFF1: 
Browse Invitrogen for biochemical assays
Browse Kits and Assays available from Millipore
Browse R&D Systems for biochemical assays
Browse biochemical assays available from Enzo Life Sciences

(According to InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
About This Section

3 InterPro domains/families:
 IPR000519 P_trefoil
 IPR017994 P_trefoil_chordata
 IPR017957 P_trefoil_CS


   GeneDecks  TFF1 for the domains selected above  
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Graphical View of Domain Structure for InterPro Entry P04155

ProtoNet protein and cluster: P04155

1 Blocks protein family: IPB000519 P-type trefoil domain

UniProtKB/Swiss-Prot: TFF1_HUMAN, P04155
Similarity: Contains 1 P-type (trefoil) domain

(According to MGI Jun 06 2009, UniProtKB, IUBMB,and/or Genatlas,
shRNA from OriGene, Sigma-Aldrich, RNAi from Sigma-Aldrich,
RNAi Products, Clones, and Q-PCR Products from Invitrogen, Millipore, OriGene, and/or Abnova, siRNAs from Applied Biosystems, SYBR primers from OriGene, Cell-based Assays from Millipore, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (TFF1)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (TFF1)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_003225

              Applied Biosystems Silencer® siRNAs for TFF1

              Sigma-Aldrich siRNA and siRNA Panels for TFF1  
                     Sigma-Aldrich shRNA Panels and shRNA for TFF1  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Clones:Invitrogen Clones for TFF1
Browse Clones for the Expression of Recombinant Proteins Available from Millipore
              OriGene GFP tagged cDNA clone in CMV expression vector: NM_003225
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_003225
                                 untagged cDNA clone in CMV expression vector: NM_003225 

Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
              OriGene genome-wide validated SYBR primer pairs: NM_003225

UniProtKB/Swiss-Prot: TFF1_HUMAN, P04155
Function: Stabilizer of the mucous gel overlying the gastrointestinal mucosa that provides a
physical barrier against various noxious agents. May inhibit the growth of calcium oxalate
crystals in urine

Genatlas biochemistry entry for TFF1:
estrogen-inducible protein,expressed in breast cancer,and some digestive tumors
(stomach,pancreas,biliary tract)

2 MGI mutant phenotypes (inferred from 1 allele(MGI details for Tff1):

digestive/alimentarytumorigenesis

1 Gene Ontology (GO) molecular function term (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0008083 growth factor activity IEA--
About this table

(Pathways according to Invitrogen (maps by GeneGo), Millipore, Cell Signaling Technology, Sigma-Aldrich, KEGG and/or UniProtKB,
Sets of similar genes according to GeneDecks, Proteins Network according to SABiosciences, Interactions according to 1UniProtKB, 2MINT, and/or 3STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2009 via Entrez Gene.)
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1 Millipore Pathway for TFF1
 Development Ligand-independent activation of ESR1 and ESR2

   GeneDecks  TFF1 for the pathways selected above  
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1 Sigma-Aldrich "Your Favorite Gene" Pathway for  TFF1  (Your Favorite Gene powered by Ingenuity) 
 Aryl Hydrocarbon Receptor Signaling

   GeneDecks  TFF1 for the pathways selected above  
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 Gene Network CentralTM Interacting Genes and Proteins Network for  TFF1 


5/34 Interacting proteins for TFF1 (ENSP000002915273 P041552) via UniProtKB, MINT, and/or STRING (see all 34 )
InteractantInteraction Details
GeneCardExternal ID(s)
UBQLN1Q9UMX02STRING (score=.859) MINT-66399
UBQLN4Q9NRR52MINT-2863556
ESR1ENSP000002062493STRING (score=.986)
FOXA1ENSP000002504483STRING (score=.976)
EGFRENSP000002754933STRING (score=.967)
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3 Gene Ontology (GO) biological process terms (links to tree view):

GO IDQualified GO termEvidencePubMed IDs
GO:0005975 carbohydrate metabolic process TAS2303034
GO:0007586 digestion NAS9043862
GO:0032355 response to estradiol stimulus IDA15831516
About this table
(Chemical Compounds according to UniProtKB, Enzo Life Sciences, Sigma-Aldrich, Tocris Bioscience, and/or Novoseek and Drugs according to Enzo Life Sciences and/or PharmGKB)
About This Section

Browse drugs & compounds from Enzo Life Sciences
Browse Small Molecules at Sigma-Aldrich

Browse Tocris compounds for TFF1
10/38 Novoseek chemical compound relationships for TFF1 gene (see all 38 )
Compound   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
progesterone 78.63 170 8754494 (4), 9737246 (3), 17883902 (2), 1562465 (2) (see all 99)
estradiol 68.77 47 1319834 (4), 7867021 (4), 16651411 (3), 8915481 (2) (see all 30)
arzoxifene 55.99 1 15149724 (1)
methylseleninic acid 52.14 1 16093440 (1)
(+-)-fenvalerate 51.34 3 10064545 (1), 12396874 (1), 12437293 (1)
steroid 48.00 37 10080679 (5), 19132993 (4), 1515241 (2), 7561244 (2) (see all 23)
genistin 46.38 2 15131010 (1), 11577007 (1)
nonylphenol 44.00 5 10811566 (2), 9158695 (2), 16393665 (1)
isoflavone 43.21 1 16424064 (1)
tetrabromobisphenol a 42.20 2 12753421 (1), 11693576 (1)
About this table


(GenBank/EMBL/DDBJ Accessions according to
Unigene (Build 219 Homo sapiens; Jun 2 2009) or GenBank,
RefSeq according to Entrez Gene,
DOTS (version 10), and/or AceView,
non coding RNAs according to RNAdb,
ESTs according to GeneTide,
exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
RNAi Products from Invitrogen, Millipore, and/or Abnova,
siRNAs from Applied Biosystems, Sigma-Aldrich,
shRNA from Sigma-Aldrich, OriGene,
Tagged/untagged cDNA clones from OriGene,
Expression Assays from Applied Biosystems)
About This Section

Inhib.
RNA:
Invitrogen RNAi Products for gene knock-down (TFF1)
Browse for Gene Knock-down Tools from Millipore
Abnova Chimera RNAi Products for Gene knock-down (TFF1)
              OriGene 29mer shRNA kit in GFP-retroviral vector: NM_003225

              Sigma-Aldrich siRNA and siRNA Panels for TFF1  
                     Sigma-Aldrich shRNA Panels and shRNA for TFF1  
                     Explore Sigma-Aldrich super-pooled esiRNAs  

Applied Biosystems Silencer® siRNAs: 

NM_003225  

REFSEQ mRNAs for TFF1 gene: 

NM_003225.2   

Applied Biosystems TaqMan ® Gene Expression Assays: 

NM_003225  

              OriGene GFP tagged cDNA clone in CMV expression vector: NM_003225
                                 Myc/DDK tagged cDNA clone in CMV expression vector: NM_003225
                                 untagged cDNA clone in CMV expression vector: NM_003225 

Additional cDNA sequence: 

BC032811.1 M12075.1 X00474.1 X52003.1 

7 DOTS entries:

DT.75173682  DT.100060235  DT.121132799  DT.95319988  DT.97864290  DT.100741977  DT.75147373 

24/190 AceView cDNA sequences (see all 190 ):

BM856237 BM855700 BM855692 BM850313 BM142503 BX341674 R55292 BM855339 
BM854657 AA858276 BF435137 BM855263 CK820254 BM853943 AA524242 BM768507 
BM786056 AI925552 AK172842 CK820253 AI970839 AB038157 BM856488 BM853888 

highest scoring ESTs for TFF1:

AA307578 AA308400 AA314326 AA314825 AA506787 AA514776 AA568312 AA573793 AA578674 AA588034 

Unigene Cluster for TFF1:

Trefoil factor 1
Hs.162807  [show with all ESTs]
Unigene Representative Sequence: BM923753


GeneLoc Exon Structure

1 Ensembl transcript including schematic representation:
ENST00000291527  
(Experimental results according to 1GeneNote and GNF BioGPS,
probe sets-to-genes annotations according to 2GeneAnnot , 3GeneTide , Sets of similar genes according to GeneDecks, Electronic Northern calculations according to data from UniGene (Build 219 Homo sapiens), SAGE tags according to CGAP, plus additional links to SOURCE, and/or GNF BioGPS, and/or EXPOLDB, and/or UniProtKB,
Expression Assays from Applied Biosystems )
About This Section

TFF1 expression in normal and diseased human tissues

 Applied Biosystems TaqMan ® Gene Expression Assays for TFF1

1 / 2 / 3

3 probe-sets matching TFF1 gene


Affymetrix
probe-set
Array  GeneAnnot data GeneNote data GeneTide data
# genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank
31798_at2, 3 U95-A 1 1.00 1.00 1.00 1.00 AA314825 0.80 0.88 0.84 1

205009_at2, 3 U133-A 1 1.00 1.00 -- -- NM_003225 0.60 0.83 0.73 1

205009_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --
GeneDecks  TFF1 for binary patterns associated with the probe-sets selected above  
About GeneDecksing
About this table    
Data from (Publications) and GNF BioGPS
    About these images
About these images

CGAP SAGE TAG: CTGGCCCTCG

SOURCE GeneReport for Unigene cluster: Hs.162807

Expression variation in blood from EXPOLDB for TFF1

UniProtKB/Swiss-Prot: TFF1_HUMAN, P04155
Tissue specificity: Found in stomach, with highest levels in the upper gastric mucosal cells (at
protein level). Detected in goblet cells of the small and large intestine and rectum, small
submucosal glands in the esophagus, mucous acini of the sublingual gland, submucosal glands of the
trachea, and epithelial cells lining the exocrine pancreatic ducts but not in the remainder of the
pancreas (at protein level). Scattered expression is detected in the epithelial cells of the
gallbladder and submucosal glands of the vagina, and weak expression is observed in the bronchial
goblet cells of the pseudostratified epithelia in the respiratory system (at protein level).
Detected in urine (at protein level). Strongly expressed in breast cancer but at low levels in
normal mammary tissue. It is regulated by estrogen in MCF-7 cells. Strong expression found in
normal gastric mucosa and in the regenerative tissues surrounding ulcerous lesions of
gastrointestinal tract, but lower expression found in gastric cancer (at protein level)

(Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD and/or 5MGI Jun 06 2009, with possible further links to Flybase and/or WormBase, Gene Trees according to Ensembl)
About This Section


Orthologs for TFF1 gene from 3 species
Organism Gene Locus Description Human
Similarity
NCBI accessions
dog
(Canis familiaris)
TFF11   -- trefoil factor 1 74.9(n)
67.9(a)
403491  NM_001002992.1  NP_001002992.1 
rat
(Rattus norvegicus)
Tff11   -- trefoil factor 1 69.55(n)
65.43(a)
117270  NM_057129.1  NP_476470.1 
mouse
(Mus musculus)
Tff15
1000410041
17 (17.00 cM)5
trefoil factor 15
predicted gene, 1000410041
71.6(n)1
66.67(a)1
1000410041  XM_001475697.11  XP_001475747.11 
 AJ2710025  AK0086255  (see all 13)
About this table        Species with no ortholog for TFF1

ENSEMBL Gene Tree for TFF1
(Paralogs according to 1HomoloGene
and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
About This Section

Paralogs for TFF1 gene
TFF22  TFF32  

(According to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, and UniProtKB, Linkage Disequilibrium by HapMap, Genotyping Reagents from Applied Biosystems)
About This Section


10/58 NCBI SNPs in TFF1 are shown (see all 58 )
(Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 93)
ABGenomic DataTranscription DataAllele Frequencies
SNP IDValidChr 21 posSequenceRecsAA
Chg
TypeMoreRecsAllele
freq
PopTotal
sample
More
------------
rs1844321,2
A,C,F,H42660631(+) CAGTTG/AGTCCC 1 -- ng3112Minor allele frequency- A:0.47EU EA WA NA 1194
rs21563101,2
A,C,F,H42659675(+) CCATTA/GCCTCC 1 -- ut517Minor allele frequency- N:0.00EA NA WA 508
rs2253591,2
A,C,F,H42660505(+) GGAGGA/GGCTGG 1 -- ng31 tfbs38Minor allele frequency- G:0.49EU EA WA 834
rs37613761,2
C,F,H42660107(+) GGGTGG/ACCACC 1 -- ng31 tfbs32Minor allele frequency- A:0.42EA 176
rs347958211,2
C,F42659609(-) CGGCAC/TCCTGG 1 T/I mis15Minor allele frequency- T:0.12NA EU EA WA 498
rs21563111,2
H42659726(+) CGCCCG/TAGCCC 1 -- ng314Minor allele frequency- T:0.00EU EA WA 420
rs130523941,2
A42661211(+) GGGCCA/GAGGCC 1 -- ng310--------
rs28394881,2
A,C,F,H,O42659255(+) GAACAC/GTCAAA 1 -- int115Minor allele frequency- N:0.01NA EA EU WA 1247
rs2253551,2
A,C,F,H42657551(-) CCTCTC/TACCTT 1 -- int111Minor allele frequency- T:0.36EA NA EU WA 888
rs72812201,2
A,C,F,H42656415(+) CCCATC/GGTATA 1 -- int17Minor allele frequency- G:0.05EU EA WA NA 556
About this table

HapMap Linkage Disequilibrium images for TFF1 (up to first 250kb)

(in which this Gene is Involved, According to OMIM, UniProtKB, Novoseek, PharmGKB, Genatlas, GeneTests, Blood group antigen gene mutations by BGMUT, HGMD, GAD, HuGE Navigator, BCGD, and/or TGDB.)
About This Section

OMIM: 113710

UniProtKB/Swiss-Prot: TFF1_HUMAN, P04155
  • Expressed in a number of carcinomas including breast (50%), pancreas (70-75%), stomach
    (50-55%), and large bowel (58%)
  • 10/79 Novoseek disease relationships for TFF1 gene (see all 79 )

    Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    breast cancer 81.25 219 11919164 (6), 9260605 (4), 16267614 (4), 8161252 (4) (see all 99)
    breast carcinoma 74.70 54 8110971 (3), 10080679 (3), 1352440 (2), 7720888 (2) (see all 39)
    carcinoma ductal 61.32 15 11709137 (2), 8385977 (2), 15375487 (2), 8253523 (1) (see all 11)
    metaplasia 60.32 33 10190312 (4), 7557569 (3), 9600121 (3), 8818606 (2) (see all 16)
    gastric cancer 59.34 88 12324709 (6), 16697734 (5), 15059374 (4), 16718800 (4) (see all 27)
    gastric carcinoma 57.37 54 8911122 (6), 14601088 (5), 12379766 (5), 17143957 (4) (see all 14)
    tumors 56.94 282 2354435 (7), 7667210 (6), 14756547 (6), 9587935 (5) (see all 99)
    ductal breast carcinoma 53.72 3 11523925 (1), 9202892 (1), 11060273 (1)
    carcinoma 53.62 103 9221798 (4), 8818606 (3), 11327531 (3), 2306733 (3) (see all 43)
    intestinal carcinoma 52.32 4 8911122 (1), 12210076 (1)
    About this table

    Human Genome Epidemiology Navigator: TFF1 (1 document)

    (Possibly Related Articles in Doctor's Guide)
    About This Section

      --

    (in PubMed. Associations of this gene to articles via 1Novoseek, 2HGNC, 3Entrez Gene, 4UniProtKB/Swiss-Prot, 5UniProtKB/TrEMBL, 6GAD, and/or 7PharmGKB)
    About This Section

    10/544 PubMed articles for TFF1 gene (see all 544 ):
    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section

     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)
    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, and/or H-InvDB)
    About This Section

    Entrez Gene: 7031 HGNC: 11755 AceView: TFF1andTMPRSS3 Ensembl:ENSG00000160182 euGenes: HUgn7031
    ECgene: TFF1 H-InvDB: TFF1
    (According to HUGE)
    About This Section

      --
    (According to ATLAS, HORDE, IMGT, MTDB, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section

    NameDescription
    ATLAS Chromosomes in Cancer entry for TFF1 Genetics and Cytogenetics in Oncology and Haematology
    (Available from WIS Yeda, Salk, Tufts)
    About This Section

      --
    (Reagents available from Applied Biosystems, Antibodies and assays by Cell Signaling Technology, Abcam, Novus Biologicals,
    Sigma-Aldrich, R&D Systems, Millipore, Abnova, and/or Invitrogen, Clones available from OriGene,and/or Invitrogen, Drugs and/or compounds by Sigma-Aldrich,
    Enzo Life Sciences, and/or Tocris Bioscience)
    About This Section



    Products for TFF1:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



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    (Estrogen Inducible Protein pS2)
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     Search www.enzolifesicences.com for proteins, assays, substrates, inhibitors & antibodies
     Antibodies for TFF1

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