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SLFN11 Gene

protein-coding   GIFtS: 47
GCID: GC17M033677

Schlafen Family Member 11

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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
Schlafen Family Member 111 2
SLFN8/92

External Ids:    HGNC: 266331   Entrez Gene: 916072   Ensembl: ENSG000001727167   OMIM: 6149535   UniProtKB: Q7Z7L13   

Export aliases for SLFN11 gene to outside databases

Previous GC identifers: GC17M030702 GC17M029862


(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 SLFN11 Gene:
SLFN11 (schlafen family member 11) is a protein-coding gene. GO annotations related to this gene include tRNA binding. An important paralog of this gene is SLFN13.

UniProtKB/Swiss-Prot: SLN11_HUMAN, Q7Z7L1
Function: Interferon (IFN)-induced antiviral protein which acts as an inhibitor of retrovirus protein synthesis.
Specifically abrogates the production of retroviruses such as human immunodeficiency virus 1 (HIV-1) by acting as
a specific inhibitor of the synthesis of retroviruses encoded proteins in a codon-usage-dependent manner. Binds
to tRNAs and exploits the unique viral codon bias towards A/T nucleotides. The exact inhibition mechanism is
unclear: may either sequesters tRNAs, prevents their maturation via post-transcriptional processing or
accelerates their deacylation. Does not inhibit reverse transcription, integration or production and nuclear
export of viral RNA. May play a role in cell cycle arrest and/or induction of apoptosis in response to
exogenously induced DNA damage

Gene Wiki entry for SLFN11 Gene


(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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Regulatory elements:
   Search for regulatory transcription factor binding sites for SLFN11
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidSLFN11 promoter sequence
   Search Chromatin IP Primers for SLFN11

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat SLFN11


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

Entrez Gene cytogenetic band: 17q12   Ensembl cytogenetic band:  17q12   HGNC cytogenetic band: 17q12

SLFN11 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
SLFN11 gene location

GeneLoc information about chromosome 17         GeneLoc Exon Structure

GeneLoc location for GC17M033677:  view genomic region     (about GC identifiers)

Start:
33,677,324 bp from pter      End:
33,700,720 bp from pter
Size:
23,397 bases      Orientation:
minus 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., and/or eBioscience,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., and/or eBioscience, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, Cloud-Clone Corp, and/or others.)
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UniProtKB/Swiss-Prot: SLN11_HUMAN, Q7Z7L1 (See protein sequence)
Recommended Name: Schlafen family member 11  
Size: 901 amino acids; 102836 Da
Sequence caution: Sequence=BAB85010.1; Type=Frameshift; Positions=135;
Secondary accessions: E1P643 Q8N3S8 Q8N762 Q8TEE0

Explore the universe of human proteins at neXtProt for SLFN11: NX_Q7Z7L1

Explore proteomics data for SLFN11 at MOPED

Post-translational modifications: 

  • Ubiquitination2 at Lys97, Lys262, Lys391, Lys429, Lys743, Lys807, Lys823, Lys890
  • Modification sites at PhosphoSitePlus

  • See SLFN11 Protein Expression from SPIRE MOPED, PaxDB, and MaxQB

    REFSEQ proteins (5 alternative transcripts): 
    NP_001098057.1  NP_001098058.1  NP_001098059.1  NP_001098060.1  NP_689483.3  

    ENSEMBL proteins: 
     ENSP00000312402   ENSP00000378067   ENSP00000465198   ENSP00000464806   ENSP00000393615  
     ENSP00000468095   ENSP00000397454   ENSP00000395140   ENSP00000468602   ENSP00000465777  

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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:
     IPR018647 DUF2075
     IPR027417 P-loop_NTPase
     IPR007421 ATPase_AAA-4

    Graphical View of Domain Structure for InterPro Entry Q7Z7L1

    ProtoNet protein and cluster: Q7Z7L1

    UniProtKB/Swiss-Prot: SLN11_HUMAN, Q7Z7L1
    Similarity: Belongs to the Schlafen family


    Find genes that share domains with SLFN11           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, 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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    Molecular Function:

         UniProtKB/Swiss-Prot Summary: SLN11_HUMAN, Q7Z7L1
    Function: Interferon (IFN)-induced antiviral protein which acts as an inhibitor of retrovirus protein synthesis.
    Specifically abrogates the production of retroviruses such as human immunodeficiency virus 1 (HIV-1) by acting as
    a specific inhibitor of the synthesis of retroviruses encoded proteins in a codon-usage-dependent manner. Binds
    to tRNAs and exploits the unique viral codon bias towards A/T nucleotides. The exact inhibition mechanism is
    unclear: may either sequesters tRNAs, prevents their maturation via post-transcriptional processing or
    accelerates their deacylation. Does not inhibit reverse transcription, integration or production and nuclear
    export of viral RNA. May play a role in cell cycle arrest and/or induction of apoptosis in response to
    exogenously induced DNA damage
    Induction: By type I interferons, poly-IC and poly-dAdT

         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000049tRNA binding IDA--
    GO:0005524ATP binding IEA--
         
    Find genes that share ontologies with SLFN11           About GenesLikeMe


    Animal Models:
       inGenious Targeting Laboratory: Let us create your new Knockout/Knockin mouse model for SLFN11
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    miRNA
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    miRTarBase miRNAs that target SLFN11:
    hsa-mir-222-3p (MIRT046706), hsa-mir-125a-5p (MIRT045763)

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    4 qRT-PCR Assays for microRNAs that regulate SLFN11:
    hsa-miR-135b hsa-miR-29a* hsa-miR-150 hsa-miR-135a
    SwitchGear 3'UTR luciferase reporter plasmidSLFN11 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 UniProtKB/Swiss-Prot
    SLN11_HUMAN, Q7Z7L1: Nucleus
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    nucleus5
    cytosol2
    endoplasmic reticulum1
    golgi apparatus1
    mitochondrion1

    Gene Ontology (GO): 3 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634nucleus IDA--
    GO:0005730NOT nucleolus IDA--
    GO:0005737cytoplasm IDA--

    Find genes that share ontologies with SLFN11           About GenesLikeMe


    (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 SLFN11
    Interactions:

        Search GeneGlobe Interaction Network for SLFN11

    STRING Interaction Network Preview (showing 2 interactants - click image to see more details)

    2 Interacting proteins for SLFN11 (Q7Z7L13 ENSP000003124024) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    CIAO1O760713, ENSP000004182874I2D: score=1 STRING: ENSP00000418287
    RPAP1Q9BWH63, ENSP000003061234I2D: score=1 STRING: ENSP00000306123
    About this table

    Gene Ontology (GO): 2 biological process terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0051607defense response to virus IMP--
    GO:2000134negative regulation of G1/S transition of mitotic cell cycle IMP--

    Find genes that share ontologies with SLFN11           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 SLFN11 (SLN11)



    (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,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    REFSEQ mRNAs for SLFN11 gene (5 alternative transcripts): 
    NM_001104587.1  NM_001104588.1  NM_001104589.1  NM_001104590.1  NM_152270.3  

    13 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000308377(uc002hjg.4) ENST00000394566(uc010ctp.3 uc010ctq.3 uc002hjh.4 uc010ctr.3)
    ENST00000592108 ENST00000586099 ENST00000591682 ENST00000441608 ENST00000589811
    ENST00000430814 ENST00000427966 ENST00000588579 ENST00000589562 ENST00000592122
    ENST00000498396
    miRNA
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    4 qRT-PCR Assays for microRNAs that regulate SLFN11:
    hsa-miR-135b hsa-miR-29a* hsa-miR-150 hsa-miR-135a
    SwitchGear 3'UTR luciferase reporter plasmidSLFN11 3' UTR sequence
    Inhib. RNA
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    Vector BioLabs ready-to-use adenovirus/AAV for human, mouse, rat SLFN11
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    Pre-validated RT2 qPCR Primer Assay in human, mouse / rat SLFN11
      QuantiTect SYBR Green Assays in human, mouse, rat SLFN11
      QuantiFast Probe-based Assays in human, mouse, rat SLFN11

    Selected AceView cDNA sequences (see all 119):

    AI347123 BX474510 AA354049 CA391453 AI700599 BQ421261 AA741467 BF724684 
    CF242828 AA455074 AA465168 AI521940 BX094814 BX504125 AW002281 AW189685 
    AI094915 AL512731 AA465286 AA810580 BX474499 BQ682917 BU838868 AA055525 

    GeneLoc Exon Structure

    Selected Alternative Splicing Database (ASD) splice patterns (SP) for SLFN11 (see all 11)    About this scheme

    ExUns: 1a · 1b · 1c · 1d · 1e ^ 2a · 2b · 2c · 2d ^ 3a · 3b ^ 4a · 4b ^ 5 ^ 6 ^ 7
    SP1:                                            -     -     -                                       
    SP2:                                            -     -                                             
    SP3:                          -                 -     -                                             
    SP4:                          -                       -                                             
    SP5:                                      -     -     -                                             


    ECgene alternative splicing isoforms for SLFN11

    (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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    SLFN11 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GAATTCCAGT
    SLFN11 Expression
    About this image


    SLFN11 expression in embryonic tissues and stem cells    About this table
    Data from LifeMap, the Embryonic Development and Stem Cells Database
     
     Endothelium (Cardiovascular System)
             Endothelial-like cells
    SLFN11 Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    SLFN11 Protein Expression

    UniProtKB/Swiss-Prot: SLN11_HUMAN, Q7Z7L1
    Tissue specificity: Exhibits a wider expression range in ovarian and colon adenocarcinoma than in their
    corresponding healthy tissues

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    In Situ
    Assay Products:
     

     
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    (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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      --

    ENSEMBL Gene Tree for SLFN11 (if available)
    TreeFam Gene Tree for SLFN11 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for SLFN11 gene
    SLFN132  SLFN122  SLFN142  SLFN12L2  SLFN52  
    6 SIMAP similar genes for SLFN11 using alignment to 9 protein entries:     SLN11_HUMAN (see all proteins):
    FLJ31952    SLFN13    SLFN12    SLFN12L    SLFN5    SLFN14

    Find genes that share paralogs with SLFN11           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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    Selected SNPs for SLFN11 (see all 558)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 17 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs72117791,2
    C,F,A--33676908(+) ctactC/Ataaaa 5 -- ds50019Minor allele frequency- A:0.29NA WA CSA 384
    rs1807454041,2
    --33676941(+) AAAACA/GTTTTG 5 -- ds50010--------
    rs72120971,2
    C,F,A,H--33677041(+) CCCATC/TCAAAC 5 -- ds500113Minor allele frequency- T:0.08NS EA NA WA 924
    rs1172504271,2
    C,F--33677117(+) GATCAC/TTTGAG 5 -- ds50011Minor allele frequency- T:0.03NA 120
    rs1847282701,2
    C--33677123(+) TTGAGC/TCCAGG 5 -- ds50010--------
    rs558892281,2
    C,F--33677147(+) AGTGAG/ACTATG 5 -- ds50011Minor allele frequency- A:0.04NA 120
    rs1392751361,2
    C--33677225(+) TTAATA/GTTGCT 5 -- ds50010--------
    rs1891719681,2
    --33677229(+) TGTTGC/TTTAAT 5 -- ds50010--------
    rs1820693791,2
    --33677240(+) CTTTTA/GCTGGC 5 -- ds50010--------
    rs792054611,2
    C,F--33677304(+) TTTAAG/ACACTT 5 -- ds50011Minor allele frequency- A:0.08EA 120

    HapMap Linkage Disequilibrium report for SLFN11 (33677324 - 33700720 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 8 variations for SLFN11:    About this table    
    Variant IDTypeSubtypePubMed ID
    esv2715869CNV Deletion23290073
    esv269947CNV Insertion20981092
    dgv365n27CNV Loss19166990
    nsv908077CNV Loss21882294
    nsv457724CNV Loss19166990
    dgv3142n71CNV Gain21882294
    nsv457728CNV Gain19166990
    nsv515566CNV Gain+Loss19592680

    Site Specific Mutation Identification with PCR Assays
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    (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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    OMIM gene information: 614953    OMIM disorders: --


    Find genes that share disorders with SLFN11           About GenesLikeMe


    Export disorders for SLFN11 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 SLFN11 gene, integrated from 10 sources (see all 24):
    (articles sorted by number of sources associating them with SLFN11)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Codon-usage-based inhibition of HIV protein synthesis by human schlafen 11. (PubMed id 23000900)1, 2 Li M.... David M. (Nature 2012)
    2. Putative DNA/RNA helicase Schlafen-11 (SLFN11) sensitizes cancer cells to DNA-damaging agents. (PubMed id 22927417)1, 2 Zoppoli G.... Pommier Y. (Proc. Natl. Acad. Sci. U.S.A. 2012)
    3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PubMed id 15489334)1, 2 Gerhard D.S.... Malek J. (Genome Res. 2004)
    4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1, 3 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)
    6. The SOX2-interactome in brain cancer cells identifies the requirement of MSI2 and USP9X for the growth of brain tumor cells. (PubMed id 23667531)1 Cox J.L....Rizzino A. (PLoS ONE 2013)
    7. Charting the landscape of tandem BRCT domain-mediated protein interactions. (PubMed id 22990118)1 Woods N.T....Monteiro A.N. (Sci Signal 2012)
    8. MMS19 assembles iron-sulfur proteins required for DNA metabolism and genomic integrity. (PubMed id 22678362)1 Stehling O.... Lill R. (Science 2012)
    9. Quantitative analysis of HSP90-client interactions reveals principles of substrate recognition. (PubMed id 22939624)1 Taipale M....Lindquist S. (Cell 2012)
    10. Methods for quantification of in vivo changes in protein ubiquitination following proteasome and deubiquitinase inhibition. (PubMed id 22505724)1 Udeshi N.D....Carr S.A. (amp 2012)

    (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: 91607 HGNC: 26633 AceView: FLJ34922 Ensembl:ENSG00000172716 euGenes: HUgn91607
    ECgene: SLFN11 H-InvDB: SLFN11

    (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 SLFN11 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 SLFN11 gene:
    Search GeneIP for patents involving SLFN11

    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, LSBio, eBioscience, 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 inGenious Targeting Laboratory, genOway)
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