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SALL4 antibody (AA 1-220)

SALL4 Reactivity: Human WB, IF Host: Rabbit Polyclonal unconjugated
Catalog No. ABIN6147364
  • Target See all SALL4 Antibodies
    SALL4 (Sal-Like 4 (SALL4))
    Binding Specificity
    • 9
    • 7
    • 5
    • 4
    • 3
    • 2
    • 2
    • 2
    • 1
    • 1
    • 1
    • 1
    • 1
    • 1
    • 1
    • 1
    AA 1-220
    Reactivity
    • 53
    • 20
    • 20
    • 18
    • 16
    • 13
    • 12
    • 4
    • 1
    • 1
    Human
    Host
    • 45
    • 9
    • 1
    Rabbit
    Clonality
    • 47
    • 8
    Polyclonal
    Conjugate
    • 30
    • 4
    • 3
    • 3
    • 2
    • 2
    • 1
    • 1
    • 1
    • 1
    • 1
    • 1
    • 1
    • 1
    • 1
    • 1
    • 1
    This SALL4 antibody is un-conjugated
    Application
    • 51
    • 30
    • 10
    • 7
    • 5
    • 4
    • 3
    • 3
    • 1
    • 1
    Western Blotting (WB), Immunofluorescence (IF)
    Sequence
    MSRRKQAKPQ HINSEEDQGE QQPQQQTPEF ADAAPAAPAA GELGAPVNHP GNDEVASEDE ATVKRLRREE THVCEKCCAE FFSISEFLEH KKNCTKNPPV LIMNDSEGPV PSEDFSGAVL SHQPTSPGSK DCHRENGGSS EDMKEKPDAE SVVYLKTETA LPPTPQDISY LAKGKVANTN VTLQALRGTK VAVNQRSADA LPAPVPGANS IPWVLEQILC
    Cross-Reactivity
    Human, Mouse
    Characteristics
    Polyclonal Antibodies
    Immunogen
    Recombinant fusion protein containing a sequence corresponding to amino acids 1-220 of human SALL4 (NP_065169.1).
    Isotype
    IgG
  • Application Notes
    WB,1:500 - 1:2000,IF,1:50 - 1:100
    Restrictions
    For Research Use only
  • Validation #104300 (Cleavage Under Targets and Release Using Nuclease)
    'Independent Validation' Badge
    by
    Cantù Lab, Gene Regulation during Development and Disease, Linköping University
    No.
    #104300
    Date
    08/20/2021
    Antigen
    SALL4
    Lot Number
    29100201
    Method validated
    Cleavage Under Targets and Release Using Nuclease
    Positive Control
    Recombinant anti-H3K27me3 CUT&RUN Positive Control antibody (antibodies-online, ABIN6923144)
    Negative Control
    Monoclonal anti-FLAG (Sigma-Aldrich, F3165)
    Notes

    Passed. ABIN6132627 allows for SALL4 targeted digestion of genomic DNA using CUT&RUN.

    'Independent Validation' Badge
    Validation Images
    Full Methods
    Primary Antibody
    ABIN6132627
    Secondary Antibody
    Full Protocol
    • Cell harvest
      • Harvest 500,000 human melanoma cells per antibody to be used at RT. /li>
      • Centrifuge cell solution 3 min at 600 x g at RT.
      • Remove the liquid carefully.
      • Gently resuspend cells in 1 mL Wash Buffer (20 mM HEPES pH 7.5, 150 mM NaCl, 0.5 mM Spermidine, Roche Complete Protease Inhibitor EDTA-free) by pipetting and transfer cell solution to a 2 mL microcentrifuge tube.
      • Centrifuge cell solution 3 min at 600 x g at RT and discard the supernatant.
      • Repeat twice for a total of three washes.
      • Resuspend cell pellet in 1 mL Wash Buffer by gently pipetting.
    • Concanavalin A beads preparation
      • Prepare one 1.5 mL microcentrifuge tube.
      • Gently resuspend the magnetic Concanavalin A Beads (antibodies-online, ABIN6923139).
      • Pipette 10 µL Con A Beads slurry for each sample into the 1.5 mL microcentrifuge tube.
      • Place the tube on a magnet stand until the fluid is clear. Remove the liquid carefully.
      • Remove the microcentrifuge tube from the magnetic stand.
      • Pipette 1 mL Binding Buffer (20 mM HEPES pH 7.5, 10 mM KCl, 1 mM CaCl2, 1 mM MnCl2) into each tube and resuspend ConA beads by gentle pipetting.
      • Spin down the liquid from the lid with a quick pulse in a table-top centrifuge.
      • Place the tubes on a magnet stand until the fluid is clear. Remove the liquid carefully.
      • Remove the microcentrifuge tube from the magnetic stand.
      • Repeat twice for a total of three washes.
      • Gently resuspend the ConA Beads in a volume of Binding Buffer corresponding to the original volume of bead slurry, i.e. 10 µL per sample.
    • Cell immobilization – binding to Concanavalin A beads
      • Carefully vortex the cell suspension and add 10 µL of the Con A beads in Binding Buffer to the cell suspension for each sample.
      • Close tube tightly and rotate for 10 min at RT.
    • Cell permeabilization and primary antibody binding
      • Divide cell suspension into separate 2 mL microcentrifuge tubes, one for each antibody (500,000 cells per sample).
      • Place the microcentrifuge tubes on a magnetic stand until the fluid is clear. Remove the liquid carefully.
      • Remove the microcentrifuge tubes from the magnetic stand.
      • Place each tube at a low angle on the vortex mixer set to a low speed and add 150 µL Digitonin Wash buffer (wash buffer with 0.025% (wt/vol) Digitonin) supplemented with 2 mM EDTA.
      • Gently vortex the microcentrifuge tubes until the beads are resuspended.
      • Add 1.5 µL antibody (anti-SALL4 antibody ABIN6132627, anti-H3K27me3 positive control antibody ABIN6923144, and anti-FLAG tag antibody negative control) to the respective tube, corresponding to a 1:100 dilution.
      • Rotate the microcentrifuge tubes ON at 4 °C.
      • Spin down the liquid and place the tubes on a magnet stand until the fluid is clear. Remove the liquid carefully.
      • Remove the microcentrifuge tubes from the magnetic stand.
      • Resuspend with 1 mL Digitonin Wash Buffer and mix by inversion. If clumping occurs, gently remove the clumps with a 1 ml pipette tip.
      • Repeat once for a total of two washes.
    • pAG-MNase Binding
      • Place the tubes on a magnet stand until the fluid is clear. Remove the liquid carefully.
      • Remove the microcentrifuge tubes from the magnetic stand.
      • Vortex the sample at low speed and add 3.75 µL 20X CUTANA pAG-MNase for ChIC/CUT&RUN Assays (ABIN6950951) to 0.5X in 150 µL Digitonin Wash Buffer per sample, gently resuspending the beads by pipetting.
      • Rotate the microcentrifuge tubes for 1 h at 4 °C.
      • Spin down the liquid and place the tubes on a magnet stand until the fluid is clear. Remove the liquid carefully.
      • Remove the microcentrifuge tubes from the magnetic stand.
      • Resuspend with 1 mL Digitonin Wash Buffer and mix by inversion. If clumping occurs, gently remove the clumps with a 1 mL pipette tip.
      • Repeat once for a total of two washes.
    • MNase digestion and release of pAG-MNase-antibody-chromatin complexes
      • Spin down the liquid from the lid with a quick pulse in a table-top centrifuge.
      • Place the tubes on a magnet stand until the fluid is clear. Remove the liquid carefully.
      • Place each tube at a low angle on the vortex mixer set to a low speed and add 100 μL Digitonin Wash buffer per sample along the side of the tube.
      • Place tubes in a heat block, kept on ice, and allow to chill.
      • Add 2 μL 0.1 M CaCl2 to each sample.
      • Incubate tubes at 0 °C for 30 min.
      • Add 100 μL 2xSTOP buffer (340 mM NaCl, 20 mM EDTA, 4 mM EGTA, 0.05% (wt/vol) Digitonin, 100 μg/mL RNAse A, 50 μg/mL Glycogen).
      • Incubate tubes at 37 °C for 30 min.
      • Place the tubes on a magnet stand until the fluid is clear.
      • Transfer the supernatant containing the pA-MNase-bound digested chromatin fragments to fresh 1.5 mL microcentrifuge tubes.
    • DNA extraction
      • Add 2 µL 10% SDS to a final concentration of 0.1% and 2.5 µL Proteinase K (20 mg/mL) to each supernatant.
      • Gently vortex tubes at a low speed of approximately 1,100 rpm.
      • Incubate tubes at 50 °C for 1 h.
      • Add 200 µL PCI to tube.
      • Vortex tubes thoroughly at high speed until the liquid appears milky.
      • Centrifuge tubes in a tabletop centrifuge at 16,000 x g at RT for 5 min.
      • Carefully transfer to upper aqueous phase to a fresh 1.5 mL microcentrifuge tube containing 2 µL glycogen (diluted 1:10 to 2 mg/mL from the 20 mg/mL stock solution).
      • Add 20 µL 3 M NaOAc pH 5.2.
      • Add 400 µL 100% ethanol.
      • Place tubes for at -20 °C ON.
      • Centrifuge tubes in a tabletop centrifuge at 16,000 x g at 4 °C for 5min.
      • Remove the liquid carefully with a pipette.
      • Wash pellet with 1ml 70% ethanol.
      • Centrifuge tubes in a tabletop centrifuge at 16,000 x g at 4 °C for 1 min.
      • Remove the liquid carefully with a pipette.
      • Air-dry the pellet, then dissolve in 30 µL 1 mM Tris-HCl, 0.1 mM EDTA.
    • Library preparation and sequencing
      • Prepare libraries using KAPA HyperPrep Kit using KAPA Dual-Indexed adapters according to protocol.
      • Sequence samples on an Illumina NextSeq 500 sequencer, using a NextSeq 500/550 High Output Kit v2.5 (75 Cycles), 36bp PE.
    • Bioinformatics
      • Align reads the human genome (hg38) using bowtie78 with settings -X 700 -m1 -v 3. Remove duplicate reads, and sort files using samtools. Filter mapped reads for size, keeping only reads with a fragment size at or below 120 base pairs.
      • Generate bedgraph files using bedtools genomecov.
      • Call peaks using SEACR version 1.3, in relaxed mode, normalizing to the negative control.
    Experimental Notes

    Results are published in Diener, J., Baggiolini, A., Pernebrink, M. et al. Epigenetic control of melanoma cell invasiveness by the stem cell factor SALL4. Nat Commun 12, 5056 (2021). https://doi.org/10.1038/s41467-021-25326-8

  • Format
    Liquid
    Buffer
    PBS with 0.02 % sodium azide,50 % glycerol, pH 7.3.
    Preservative
    Sodium azide
    Precaution of Use
    This product contains Sodium azide: a POISONOUS AND HAZARDOUS SUBSTANCE which should be handled by trained staff only.
    Storage
    -20 °C
    Storage Comment
    Store at -20°C. Avoid freeze / thaw cycles.
  • Diener, Baggiolini, Pernebrink, Dalcher, Lerra, Cheng, Varum, Häusel, Stierli, Treier, Studer, Basler, Levesque, Dummer, Santoro, Cantù, Sommer: "Epigenetic control of melanoma cell invasiveness by the stem cell factor SALL4." in: Nature communications, Vol. 12, Issue 1, pp. 5056, (2021) (PubMed).

  • Target
    SALL4 (Sal-Like 4 (SALL4))
    Alternative Name
    SALL4 (SALL4 Products)
    Synonyms
    SALL4 antibody, drrs antibody, sall4a antibody, znf797 antibody, MGC81541 antibody, hsal4 antibody, MGC76059 antibody, cb614 antibody, sb:cb372 antibody, sb:cb614 antibody, wu:fa01g03 antibody, ik:tdsubc_2c1 antibody, xx:tdsubc_2c1 antibody, 5730441M18Rik antibody, AA407717 antibody, AL022809 antibody, AW536104 antibody, C330011P20Rik antibody, C78083 antibody, C78563 antibody, Tex20 antibody, DRRS antibody, HSAL4 antibody, ZNF797 antibody, dJ1112F19.1 antibody, spalt like transcription factor 4 antibody, sal-like 4 (Drosophila) antibody, spalt-like transcription factor 4 L homeolog antibody, spalt-like transcription factor 4 antibody, SALL4 antibody, sall4 antibody, sall4.L antibody, Sall4 antibody
    Background
    This gene encodes a zinc finger transcription factor thought to play a role in the development of abducens motor neurons. Defects in this gene are a cause of Duane-radial ray syndrome (DRRS). Alternative splicing results in multiple transcript variants encoding different isoforms.,SALL4,DRRS,HSAL4,ZNF797,Epigenetics & Nuclear Signaling,Cell Biology & Developmental Biology,Stem Cells,Embryonic Stem Cells,SALL4
    Molecular Weight
    65 kDa/112 kDa
    Gene ID
    57167
    UniProt
    Q9UJQ4
    Pathways
    Stem Cell Maintenance, Tube Formation
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