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DDI1 Gene

protein-coding   GIFtS: 46
GCID: GC11P103907

DNA-Damage Inducible 1 Homolog 1 (S. Cerevisiae)

(Previous names: DDI1, DNA-damage inducible 1, homolog 1 (S. cerevisiae))
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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
DNA-Damage Inducible 1 Homolog 1 (S. Cerevisiae)1 2
DDI1, DNA-Damage Inducible 1, Homolog 1 (S. Cerevisiae)1
DDI1, DNA-Damage Inducible 1, Homolog 12
DNA-Damage Inducible Protein 12
Protein DDI1 Homolog 12

External Ids:    HGNC: 189611   Entrez Gene: 4143012   Ensembl: ENSG000001709677   UniProtKB: Q8WTU03   

Export aliases for DDI1 gene to outside databases

Previous GC identifers: GC00U915586 GC11P103412 GC11U900686 GC11P099836


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for DDI1 Gene:
DDI1 (DNA-damage inducible 1 homolog 1 (S. cerevisiae)) is a protein-coding gene. GO annotations related to this gene include aspartic-type endopeptidase activity. An important paralog of this gene is DDI2.


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000011.9  NC_018922.2  NT_033899.9  
Regulatory elements:
   Regulatory transcription factor binding sites in the DDI1 gene promoter:
         AML1a   RREB-1   MyoD   HNF-3beta   Cdc5   Tal-1beta   CREB   deltaCREB   ITF-2   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidDDI1 promoter sequence
   Search Chromatin IP Primers for DDI1

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat DDI1


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 11q22.3   Ensembl cytogenetic band:  11q22.3   HGNC cytogenetic band: 11q22.3

DDI1 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
DDI1 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11P103907:  view genomic region     (about GC identifiers)

Start:
103,907,308 bp from pter      End:
103,909,922 bp from pter
Size:
2,615 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: DDI1_HUMAN, Q8WTU0 (See protein sequence)
Recommended Name: Protein DDI1 homolog 1  
Size: 396 amino acids; 44124 Da
1 PDB 3D structure from and Proteopedia for DDI1:
3S8I (3D)    
Secondary accessions: Q7Z4U6 Q8WTS3

Explore the universe of human proteins at neXtProt for DDI1: NX_Q8WTU0

Explore proteomics data for DDI1 at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See DDI1 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins: NP_001001711.1  
    ENSEMBL proteins: 
     ENSP00000302805  

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    3 InterPro protein domains:
     IPR021109 Peptidase_aspartic_dom
     IPR019103 Peptidase_aspartic_DDI1-type
     IPR000626 Ubiquitin_dom

    Graphical View of Domain Structure for InterPro Entry Q8WTU0

    ProtoNet protein and cluster: Q8WTU0

    1 Blocks protein domain: IPB000626 Ubiquitin domain

    UniProtKB/Swiss-Prot: DDI1_HUMAN, Q8WTU0
    Similarity: Belongs to the DDI1 family
    Similarity: Contains 1 ubiquitin-like domain


    Find genes that share domains with DDI1           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004190aspartic-type endopeptidase activity IEA--
    GO:0005515protein binding ----
         
    Find genes that share ontologies with DDI1           About GenesLikeMe


    Phenotypes:
         1 GenomeRNAi human phenotype for DDI1:
     Big cells 

    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for DDI1

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    SwitchGear 3'UTR luciferase reporter plasmidDDI1 3' UTR sequence
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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytosol3
    cytoskeleton2
    extracellular1
    nucleus1

    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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        Custom Pathway & Disease-focused RT2 Profiler PCR Arrays for DDI1
    Interactions:

        Search GeneGlobe Interaction Network for DDI1

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    Selected Interacting proteins for DDI1 (Q8WTU02, 3 ENSP000003028054) via UniProtKB, MINT, STRING, and/or I2D (see all 83)
    InteractantInteraction Details
    GeneCardExternal ID(s)
    DVL2O146412, 3, ENSP000000053404MINT-67236 I2D: score=4 STRING: ENSP00000005340
    ADRM1Q161863, ENSP000002530034I2D: score=1 STRING: ENSP00000253003
    RAD23BP547273, ENSP000003507084I2D: score=5 STRING: ENSP00000350708
    CCL28Q9NRJ33I2D: score=1 
    PSMD2ENSP000003101294STRING: ENSP00000310129
    About this table

    Gene Ontology (GO): 1 biological process term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006508proteolysis ----

    Find genes that share ontologies with DDI1           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Browse Tocris compounds for DDI1



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
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    REFSEQ mRNAs for DDI1 gene: 
    NM_001001711.2  

    Unigene Cluster for DDI1:

    DNA-damage inducible 1 homolog 1 (S. cerevisiae)
    Hs.591941  [show with all ESTs]
    Unigene Representative Sequence: NM_001001711
    1 Ensembl transcript including schematic representation, and UCSC links where relevant:
    ENST00000302259(uc001phr.2)
    miRNA
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    hsa-miR-607 hsa-miR-875-3p hsa-miR-4307 hsa-miR-4251 hsa-miR-186* hsa-miR-374b hsa-miR-374a hsa-miR-29b-1*
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    Inhib. RNA
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    Additional mRNA sequence: 

    AF429971.1 AK093336.1 BC021172.2 BC021710.1 BC022017.2 BC022018.1 

    1 DOTS entry:

    DT.99958084 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    DDI1 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    DDI1 Expression
    About this image


    DDI1 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     selected tissues (see all 3) fully expand
     
     Ovary (Reproductive System)
             Secondary Oocyte Antral Follicle
     
     Gonad
             Secondary Oocyte Antral Follicle
     
     Testis (Reproductive System)
    DDI1 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    DDI1 Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.591941
        Custom PCR Arrays for DDI1
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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for DDI1

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    This gene was present in the common ancestor of animals and fungi.

    Orthologs for DDI1 gene from Selected species (see all 10)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Ddi11 , 5 DDI1, DNA-damage inducible 1, homolog 1 (S. cerevisiae)1, 5 80.54(n)1
    82.74(a)1
      9 (2.46 cM)5
    718291  NM_027942.11  NP_082218.11 
     62650285 
    fruit fly
    (Drosophila melanogaster)
    Insecta rngo6
    rings lost
    41(a)
    1 → many
    X(16335466-16339400)
    worm
    (Caenorhabditis elegans)
    Secernentea C01G5.66
    Protein C01G5.6 (C01G5.6) mRNA, complete cds
    27(a)
    1 → many
    IV(6522874-6524568) WBGene00015308
    baker's yeast
    (Saccharomyces cerevisiae)
    Saccharomycetes DDI16
    DNA damage-inducible v-SNARE binding protein with ...
    28(a)
    1 → many
    V(456319-457605) YER143W


    ENSEMBL Gene Tree for DDI1 (if available)
    TreeFam Gene Tree for DDI1 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for DDI1 gene
    DDI22  
    1 SIMAP similar gene for DDI1 using alignment to 1 protein entry:     DDI1_HUMAN:
    DDI2

    Find genes that share paralogs with DDI1           About GenesLikeMe



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    3 SNPs for DDI1    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 11 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs71026751,2,4
    ----see VAR_0322592 mis40--------
    rs178566331,2,4
    ----see VAR_0322602 mis40--------
    rs178518701,2,4
    ----see VAR_0322612 mis40--------

    HapMap Linkage Disequilibrium report for DDI1 (103907308 - 103909922 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 1 variation for DDI1:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2750977CNV Gain17911159

    Site Specific Mutation Identification with PCR Assays
    SeqTarget long-range PCR primers for resequencing DDI1
    DNA2.0 Custom Variant and Variant Library Synthesis for DDI1

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    Find genes that share disorders with DDI1           About GenesLikeMe

    Genetic Association Database (GAD): DDI1
    Human Genome Epidemiology (HuGE) Navigator: DDI1 (3 documents)

    Export disorders for DDI1 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for DDI1 gene integrated from 10 sources:
    (articles sorted by number of sources associating them with DDI1)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Variation at the NFATC2 locus increases the risk of thiazolidinedione-induced edema in the Diabetes REduction Assessment with ramipril and rosiglitazone Medication (DREAM) study. (PubMed id 20628086)1, 4 Bailey S.D....Anand S. (Diabetes Care 2010)
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    3. Gene-centric association signals for lipids and apolipoproteins identified via the HumanCVD BeadChip. (PubMed id 19913121)1 Talmud P.J.... . (Am. J. Hum. Genet. 2009)
    4. Genome-wide association scan identifies variants near Matrix Metalloproteinase (MMP) genes on chromosome 11q21-22 strongly associated with serum MMP-1 levels. (PubMed id 20031604)4 Cheng Y.C....Pollin T.I. (Circ Cardiovasc Genet 2009)
    5. hORFeome v3.1: a resource of human open reading frames representing over 10,000 human genes. (PubMed id 17207965)1 Lamesch P.... Vidal M. (Genomics 2007)
    6. Towards a proteome-scale map of the human protein-protein interaction network. (PubMed id 16189514)1 Rual J.F....Vidal M. (Nature 2005)
    7. A genomic analysis of rat proteases and protease inhibitors. (PubMed id 15060002)1 Puente X.S. and Lopez-Otin C. (Genome Res. 2004)
    8. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    9. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     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, Kegg, and/or H-InvDB)
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    Entrez Gene: 414301 HGNC: 18961 Ensembl:ENSG00000170967 euGenes: HUgn414301 ECgene: DDI1
    H-InvDB: DDI1

    (According to HUGE)
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      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for DDI1 Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for DDI1 gene:
    Search GeneIP for patents involving DDI1

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from genOway)
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     Block miRNA regulation of human, mouse, rat DDI1 using miScript Target Protectors SeqTarget long-range PCR primers for resequencing DDI1
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     QuantiFast Probe-based Assays in human, mouse, rat DDI1 QuantiTect SYBR Green Assays in human, mouse, rat DDI1
     Custom PCR Arrays for DDI1 Search Chromatin IP Primers for DDI1
     Pre-validated RT2 qPCR Primer Assay in human, mouse, rat DDI1  Search GeneGlobe Interaction Network for DDI1
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     Vector-based siRNA and miRNA, Ready for Transfection Gene Mutant Library, Variants up to 10^11
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     Search for Antibodies & Assays

     Search Tocris compounds for DDI1
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     Protein Production Services
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     Search www.enzolifesciences.com for proteins, assays, substrates, inhibitors & antibodies

     Novus Tissue Slides
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     Browse ESI BIO Cell Lines and PureStem Progenitors for DDI1
     Gene Synthesis
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     SwitchGear 3'UTR luciferase reporter plasmids for DDI1
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     Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat DDI1
     Browse compounds at ApexBio
     Addgene plasmids for DDI1
      Search eBioscience for proteins for DDI1
      Search eBioscience for elisas for DDI1
      eBioscience FlowRNA Probe Sets
     genOway: Develop your customized and physiologically relevant rodent model for DDI1
     antibodies-online antibodies for DDI1 (10 products)
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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