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RSF1 Gene

protein-coding   GIFtS: 54

GC11M077055
remodeling and spacing factor 1
(Previous name: hepatitis B virus x associated protein )
Symbol approved by the HUGO Gene Nomenclature Committee (HGNC) database
(Previous symbol: HBXAP)
Services    
(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc , and/or 7Ensembl, 8miRBase)
About This Section

Aliases
HBXAP 2, 3, 5
RSF-1 1, 2
Rsf-1 3
XAP8 1, 2, 3
p325 1, 2
Descriptions
HBV pX associated protein-8 2
HBV pX-associated protein 8 3
Hepatitis B virus X-associated protein 2, 3
hepatitis B virus x associated protein 1, 2
p325 subunit of RSF chromatin-remodeling complex 3
remodeling and spacing factor 1 2
External Ids
HGNC: 181181
Entrez Gene: 517732
UniProtKB: Q96T233
Ensembl: ENSG000000486497
Search outside databases for aliases for RSF1 gene

(According to Entrez Gene, Wikipedia's Gene Wiki,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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EntrezGene summary for RSF1:
HBXAP is involved in transcription repression, transcription coactivation when associated with
hepatitis B virus X protein (HBX), and chromatin remodeling and spacing when associated with SNF2H
(MIM 603375).[supplied by OMIM]

UniProtKB/Swiss-Prot: RSF1_HUMAN, Q96T23
Function: Required for assembly of regular nucleosome arrays by the RSF chromatin-remodeling
complex. Facilitates transcription of hepatitis B virus (HBV) genes by the pX transcription
activator. In case of infection by HBV, together with pX, it represses TNF-alpha induced
NF-kappa-B transcription activation. Represses transcription when artificially recruited to
chromatin by fusion to a heterogeneous DNA binding domain

Gene Wiki entry for RSF1

(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)
About This Section

Genomic View:
UCSC Golden Path with GeneCards custom track

 Transcription factor binding sites upstream to the RSF1 gene  

Entrez Gene cytogenetic band: 11q14.1   Ensembl cytogenetic band:  11q14.1   HGNC cytogenetic band: 11q13.5

RSF1 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 11         GeneLoc Exon Structure

GeneLoc location for GC11M077055:     (about GC identifiers)

Start:
77,054,922 bp from pter
End:
77,209,528 bp from pter
Size:
154,607 bases
Orientation:
minus strand
RefSeq DNA sequence:
NC_000011.8  NT_033927.7  
(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: RSF1_HUMAN, Q96T23 (See protein sequence)
Recommended Name: Remodeling and spacing factor 1  
Size: 1431 amino acids; 163006 Da
Subunit: Interacts with SMARCA5/SNF2H to form the RSF complex. Also binds the HBV pX/HBx protein,
which is required to activate transcription of the viral genome
Subcellular location: Nucleus
Sequence caution: Sequence=AAG43114.1; Type=Frameshift; Positions=539; Sequence=BAA91591.1;
Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence starting in
position 476;
Secondary accessions: Q86X86 Q9H3L8 Q9NVZ8 Q9NYU0
Alternative splicing: 3 isoforms:  Q96T23-1   Q96T23-2   Q96T23-3   (Experimental confirmation may be lacking for some isoforms)

Post-translational modifications:

  • Phosphorylated upon DNA damage, probably by ATM or ATR1
  • View phosphorylation sites using PhosphoSite2


  • REFSEQ proteins: NP_057662.3  

    ENSEMBL proteins: 
    ENSP00000311513 ENSP00000353511 


    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 (RSF1)
    Human Recombinant Proteins from Abnova (HBXAP)
                    Browse Origene for full length recombinant human proteins expressed in human HEK293 cells 

    2 Gene Ontology (GO) cellular component terms (links to tree view):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005634 nucleus IDA11788598 12972596
    GO:0031213 RSF complex IPI9836642
    About this table

    Antibodies for RSF1: 
    Browse Antibodies Central at Invitrogen
    Millipore Mono- and Polyclonal Antibodies for the study of RSF1
    Sigma-Aldrich Antibodies for RSF1
    Browse R&D Systems for Antibodies
    Antibodies from Abcam (RSF1), each with their AbpromiseSM
    Monoclonal and Polyclonal Antibodies from Abnova (HBXAP)
    Novus Biologicals Antibody for RSF1

    Assays for RSF1: 
    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:
     IPR019786 Zinc_finger_PHD-type_CS
     IPR001965 Znf_PHD
     IPR019787 Znf_PHD-finger


       GeneDecks  RSF1 for the domains selected above  
    About GeneDecksing

    Graphical View of Domain Structure for InterPro Entry Q96T23

    ProtoNet protein and cluster: Q96T23

    2 Blocks protein families:
    IPB001965 Zn-finger-like
    IPB004022 DDT domain


    UniProtKB/Swiss-Prot: RSF1_HUMAN, Q96T23
    Similarity: Contains 1 DDT domain
    Similarity: Contains 1 PHD-type zinc finger

    (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.)
    About This Section

    Inhib.
    RNA:
    Invitrogen RNAi Products for gene knock-down (RSF1)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (HBXAP)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_016578

                  Applied Biosystems Silencer® siRNAs for RSF1

                  Sigma-Aldrich siRNA and siRNA Panels for RSF1  
                         Sigma-Aldrich shRNA for RSF1  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Clones:Browse Clone Ranger at Invitrogen for clones
    Browse Clones for the Expression of Recombinant Proteins Available from Millipore
                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_016578
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_016578
                                     untagged cDNA clones in CMV expression vector (see all 2): BC015360 

    Primers: Browse Quantitative PCR Central at Invitrogen for Q-PCR LUX™ Primers
                  OriGene genome-wide validated SYBR primer pairs: NM_016578

    UniProtKB/Swiss-Prot: RSF1_HUMAN, Q96T23
    Function: Required for assembly of regular nucleosome arrays by the RSF chromatin-remodeling
    complex. Facilitates transcription of hepatitis B virus (HBV) genes by the pX transcription
    activator. In case of infection by HBV, together with pX, it represses TNF-alpha induced
    NF-kappa-B transcription activation. Represses transcription when artificially recruited to
    chromatin by fusion to a heterogeneous DNA binding domain

    5/6 Gene Ontology (GO) molecular function terms (links to tree view) (see all 6 ):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0008270 zinc ion binding IEA--
    GO:0016563 transcription activator activity IDA11788598
    GO:0016564 transcription repressor activity IDA11944984
    GO:0016887NOT ATPase activity IDA12972596
    GO:0042393 histone binding IDA12972596
    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.)
    About This Section


    1 Sigma-Aldrich "Your Favorite Gene" Pathway for  RSF1  (Your Favorite Gene powered by Ingenuity) 
     Purine Metabolism

       GeneDecks  RSF1 for the pathways selected above  
    About GeneDecksing


    5/6 Interacting proteins for RSF1 (Q96T231 ENSP000003115133) via UniProtKB, MINT, and/or STRING (see all 6 )
    InteractantInteraction Details
    GeneCardExternal ID(s)
    SMARCA5O602641, ENSP000002831313EBI-926793, EBI-352588 STRING (score=.994)
    PTGES3ENSP000002620333STRING (score=.893)
    SSRP1ENSP000002784123STRING (score=.777)
    AIPENSP000002791463STRING (score=.75)
    AHRENSP000002420573STRING (score=.746)
    About this table

    5/8 Gene Ontology (GO) biological process terms (links to tree view) (see all 8 ):

    GO IDQualified GO termEvidencePubMed IDs
    GO:0006334 nucleosome assembly IDA12972596
    GO:0006338 chromatin remodeling IDA9836642
    GO:0006350 transcription IEA--
    GO:0006352 transcription initiation IDA9836642
    GO:0016584 nucleosome positioning IDA9836642
    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 RSF1
    2 Novoseek chemical compound relationships for RSF1 gene
    Compound   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    nitric oxide 0.00 2 10051498 (1), 11732012 (1)
    lipid 0.00 1 19105208 (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 (RSF1)
    Browse for Gene Knock-down Tools from Millipore
    Abnova Chimera RNAi Products for Gene knock-down (HBXAP)
                   OriGene 29mer shRNA kit in GFP-retroviral vectors (see all 2): NM_016578

                  Sigma-Aldrich siRNA and siRNA Panels for RSF1  
                         Sigma-Aldrich shRNA for RSF1  
                         Explore Sigma-Aldrich super-pooled esiRNAs  

    Applied Biosystems Silencer® siRNAs: 

    NM_016578  

    REFSEQ mRNAs for RSF1 gene: 

    NM_016578.3   

    Applied Biosystems TaqMan ® Gene Expression Assays: 

    NM_016578  

                  OriGene GFP tagged cDNA clone in CMV expression vector: NM_016578
                                     Myc/DDK tagged cDNA clone in CMV expression vector: NM_016578
                                     untagged cDNA clones in CMV expression vector (see all 2): BC015360 

    Additional cDNA sequence: 

    AF059317.1 AF227948.2 AF380176.1 AK001268.1 AK098130.1 BC000774.2 BC015360.1 BC046124.1 
    BC046347.1 

    8 DOTS entries:

    DT.433915  DT.455451  DT.91727429  DT.120728130  DT.100771524  DT.120728093  DT.120728149  DT.86791219 

    24/319 AceView cDNA sequences (see all 319 ):

    AI804446 AW268852 AA031624 BQ959557 AA482600 CA842742 BI963956 BQ027318 
    AL600138 BQ014494 BU737872 BQ012722 BC011205 AI673308 AA694363 AI300574 
    AI572186 BU785540 AI283370 AW292415 AI571542 AA760914 AI080249 AA488345 

    highest scoring ESTs for RSF1:

    AA074879 AA280203 AA188500 AW793448 BE019573 BU949936 AA034408 AA034409 AA074861 AA074880 

    Unigene Cluster for RSF1:

    Remodeling and spacing factor 1
    Hs.420229  [show with all ESTs]
    Unigene Representative Sequence: AF227948


    GeneLoc Exon Structure

    2 Ensembl transcripts including schematic representations:
    ENST00000308488  ENST00000360355  
    (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

    RSF1 expression in normal and diseased human tissues

     Applied Biosystems TaqMan ® Gene Expression Assays for RSF1

    1 / 2 / 3

    11 probe-sets matching RSF1 gene


    Affymetrix
    probe-set
    Array  GeneAnnot data GeneNote data GeneTide data
    # genes Sensitivity Specificity Correlation Length Gb_Accession Consensus Uniqueness Score Rank

    84416_at2, 3 U95-E 1 1.00 1.00 0.62 0.82 AA188500 0.80 0.88 0.84 1

    53714_at2, 3 U95-B 1 1.00 1.00 0.83 0.92 AA074879 0.80 1.00 0.91 1

    52783_at2, 3 U95-B 2 0.69 0.85 0.55 1.35 AA280203 0.80 1.00 0.91 1

    223818_s_at2, 3 U133-B 1 1.00 1.00 -- -- AF059317 0.60 0.75 0.68 1

    218166_s_at2, 3 U133-A 1 1.00 1.00 -- -- NM_016578 0.60 1.00 0.82 1

    222540_s_at2, 3 U133-B 1 1.00 1.00 -- -- BG286920 0.60 1.00 0.82 1

    222541_at*2, 3 U133-B NULL 0.00 0.00 -- -- AA173588 0.20 1.00 0.72 1

    223818_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    218166_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    222540_s_at2 U133Plus2 1 1.00 1.00 -- -- -- -- -- -- --

    222541_at*2 U133Plus2 NULL 0.00 0.00 -- -- -- -- -- -- --
    About this table
    Data from (Publications) and GNF BioGPS
        About these images
    About these images

    CGAP SAGE TAG: GAAATGCATT

    SOURCE GeneReport for Unigene cluster: Hs.420229

    UniProtKB/Swiss-Prot: RSF1_HUMAN, Q96T23
    Tissue specificity: Ubiquitously expressed

    (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 RSF1 gene from 5/9 species (see all 9 )
    Organism Gene Locus Description Human
    Similarity
    NCBI accessions
    dog
    (Canis familiaris)
    RSF11   -- remodeling and spacing factor 1 91.59(n)
    91.49(a)
    476797  XM_534002.2  XP_534002.2 
    chimpanzee
    (Pan troglodytes)
    RSF11   -- remodeling and spacing factor 1 99.69(n)
    99.57(a)
    451441  XM_508659.2  XP_508659.2 
    cow
    (Bos taurus)
    RSF11   -- remodeling and spacing factor 1 91.49(n)
    91.32(a)
    541248  XM_864539.2  XP_869632.1 
    rat
    (Rattus norvegicus)
    Rsf11   -- remodeling and spacing factor 1 85.59(n)
    83.37(a)
    308839  XM_218939.4  XP_218939.2 
    mouse
    (Mus musculus)
    Rsf11, 5 75
    remodeling and spacing factor 11, 5 86.02(n)1
    84.09(a)1
    2335321  NM_001081267.11  NP_001074736.11 
     AA7708145  AI9879315  (see all 23)
    About this table        Species with no ortholog for RSF1

    ENSEMBL Gene Tree for RSF1
    (Paralogs according to 1HomoloGene
    and 2Ensembl, Pseudogenes according to 3Pseudogene.org)
    About This Section

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


    10/763 NCBI SNPs in RSF1 are shown (see all 763 )
    (Click for Applied Biosystems TaqMan ® Genotyping Assay)  (see all 180)
    ABGenomic DataTranscription DataAllele Frequencies
    SNP IDValidChr 11 posSequenceRecsAA
    Chg
    TypeMoreRecsAllele
    freq
    PopTotal
    sample
    More
    ------------
    rs79508731,2
    A,C,F,H77090499(+) CTTAGA/GGGGGC 1 S/P mis1 ese313Minor allele frequency- G:0.10NA EU EA WA 1214
    rs112372621,2
    F,H77055066(+) AGGCTG/CTTACT 1 -- ut31 ese34Minor allele frequency- C:0.00EU EA WA 420
    rs49451971,2
    A,C,F,H77056036(+) CGGTGT/CAGCCG 1 L/L syn1 ese312Minor allele frequency- C:0.22EU EA WA NA 1148
    rs49452031,2
    A,C,F,H77087216(+) TTGCAT/CGGTTC 1 P/P syn1 ese35Minor allele frequency- C:0.22EU EA WA NA 496
    rs289306821,2
    C,F,H77056153(+) AGCTCA/GTCATC 1 D/D syn18Minor allele frequency- G:0.46EU EA NA WA 788
    rs116076081,2
    C,H77056096(+) GAATAC/TTCGTC 1 E/E syn1 ese34Minor allele frequency- T:0.00EU EA WA 418
    rs178249521,2
    H77060754(+) CTGGAA/GAGTCT 1 L/L syn1 ese37Minor allele frequency- G:0.00NA EU EA WA 552
    rs177519081,2
    H77056006(+) TCACAA/GCTCTC 1 S/S syn17Minor allele frequency- G:0.00NA EU EA WA 552
    rs177519301,2
    H77056030(+) TCAATC/ACGGTG 1 R/R syn1 ese37Minor allele frequency- A:0.00NA EU EA WA 552
    rs178249171,2
    H77055904(+) TCACTT/CTCTAT 1 E/E syn17Minor allele frequency- C:0.00NA EU EA WA 550
    About this table

    HapMap Linkage Disequilibrium images for RSF1 (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: 608522

    10/11 Novoseek disease relationships for RSF1 gene (see all 11 )

    Disease   Score   Articles   PubMed IDs for Articles with Shared Sentences (# sentences)
    hepatitis b 88.67 214 16677157 (4), 11278765 (2), 16169872 (2), 17187364 (2) (see all 99)
    hepatocellular carcinoma 80.66 29 16219135 (2), 9638654 (1), 17187364 (1), 18264140 (1) (see all 28)
    hepatitis b chronic 66.35 1 19263472 (1)
    hepatitis chronic 48.10 3 2156203 (1), 16554914 (1), 11692143 (1)
    tumors 33.56 8 11278765 (1), 9405677 (1), 9755238 (1), 16172393 (1) (see all 8)
    liver cirrhosis 32.11 1 16554914 (1)
    liver diseases 23.45 1 11555189 (1)
    immunodeficiency 1.61 3 2191500 (1), 1309924 (1), 2335828 (1)
    necrosis 0.00 1 9755238 (1)
    metastasis 0.00 1 17187364 (1)
    About this table

    (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

    10/154 PubMed articles for RSF1 gene (see all 154 ):
    (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: 51773 HGNC: 18118 AceView: HBXAP Ensembl:ENSG00000048649 euGenes: HUgn51773
    ECgene: RSF1 H-InvDB: RSF1
    (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 RSF1 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 RSF1:
     TaqMan ® Gene Expression Assays
     TaqMan ® Genotyping Assays
      Free SNP selection tool



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     Predesigned and custom siRNAs for RSF1 Antibodies for RSF1
     Explore super-pooled esiRNAs Browse proteins at Sigma-Aldrich
     Lentivirus-delivered shRNAs for RSF1 Browse small molecules at Sigma-Aldrich
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