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25 protocols using tra 1 60

1

Characterizing hiPSCs by Stemness Markers

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The hiPSCs were continuously subcultured for more than 30 passages on hUC-MSCs feeder and characterized by immunocytochemistry with stemness-related fluorescence-labeled antibodies, which were OCT4 (octamer-binding transcription factor 4), SOX2 (SRY related HMG box-2), NANOG, SSEA4 (stage-specific embry-onic antigen-4) and TRA-1-60 (Abcam, UK). The nuclei were visualized by staining with DAPI (4’,6-Diamidine-2’-phenylindole dihydrochloride) (Roche, USA).
The hiPSCs were cultured on sterile cover glass in 24-well plates (Nunc, Denmark) with the hUC-MSCs feeder. After 2–3 days of following passage, growing hiPSCs on the feeder were washed with PBS and fixed in 4% paraformaldehyde (Boster, China), then the cells were incubated with the following antibodies: OCT4, SOX2, NANOG, SSEA4 and TRA-1-60 (Abcam, UK), and stained according to manufacturer’s protocol. The stained cells were imaged with an inverted fluorescence microscope (ix71; Olympus, Japan).
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2

Pluripotency and Lineage Marker Analysis

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Cells were grown in six-well plates and fixed with 4% paraformaldehyde. The following antibodies were used: OCT4 (1:200; Abcam 19857), NANOG (1:200; Abcam 21624), Tra1-81 (1:200; Abcam 16289), Tra1–60 (1:200; Abcam 16288), Smooth Muscle Actinin (SMA; 1:200; Abcam 5694), Tuj1 (1:200; Covance MMS-435P) and α-fetoprotein (1:200; Dako A 0008). Secondary antibodies used were from Jackson Immunoresearch: DyLight 549-coniugated AffiniPure Goat Anti-Rabbit IgG (1:250; 111-505-303); DyLight 488-coniugated AffiniPure Donkey Anti-mouse IgG (1:250; 715-485-150) and were used according to the manufacturer’s guidelines. Images were taken using an Axiovert 200M microscope (Zeiss).
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3

Immunostaining of Pluripotent Stem Cells

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iPSCs were harvested using Versene 0.02% EDTA (Life Technologies) and were seeded on Matrigel coated coverslips and were let to grow for 5 days in mTeSR1. Cells were washed with 3 X PBS, fixed using 4% parafomaldehyde (15 mins), washed and then permabilized with 0.2% Triton-X (15 mins), washed and blocked for 3 hours in 3% goat serum and incubated with Tra 1–60 (Abcam) and NANOG (Abcam) overnight in 4 °C. Cells were washed with 3 X PBS and incubated for 1 hour with secondary antibodies Alexa-Fluor 488 (Abcam) and Alexa-Fluor 563 (Abcam). Cells were washed with 3 X PBS and mounted on a microscope slide with antifade medium containing DAPI (VECTASHIELD, VECTOR laboratories).
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4

Pluripotent Stem Cell Differentiation Protocol

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The main reagents include DMEM/F12 (1:1) medium, knockout serum replacement (KSR), valproic acid, fetal bovine serum, Essential 8™ Flex Medium, Geltrex™, KSFM medium, BMP‐4, bovine pituitary extract (BPE), (Gibco), NANOG, OCT4, SOX2, SSEA‐4, TRA‐1‐81, TRA‐1‐60, Krt19, Integrinβ1, CD200, CD31 and VEGF‐A antibodies (Abcam), PDGF‐B and Ang2 antibodies (Santa Cruz), recombinant human EGF (R&D), RA, valproic acid, sodium alginate (Sigma), Matrigel® Matrix (Corning), mTeSRTM1 medium (Stem Cell), Astragalus polysaccharide (Solarbio), silk fibroin and collagen (Hefei Bomei Bio), and Dextran Texas red™ (Invitrogen). Primers were designed using Primier 6.0 software, and all primers were synthesized as shown in Table 1.
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5

Immunocytochemical Analysis of Stem Cells

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Immunocytochemistry was performed as previously described 49. Briefly, cells were washed with PBS and fixed in situ using 4% PFA in PBS before being washed, permeabilized with 0.3% Triton in PBS (if required) and blocked for 30 minutes in 2% BSA/0.05% Triton in PBS. Cells were then incubated in the appropriate primary antibody overnight at 4°C before being washed and incubated with the appropriate secondary antibody for 1 hour at room temperature in the dark. Finally, cells were washed, the nuclei were stained with 4',6‐diamidino‐2‐phenylindole (DAPI) and the cells were visualized on a Zeiss Axio Observer A1 fluorescence microscope. Additional antibodies used were anti‐REX1, TRA‐1–60, and DNMT3B (all 1:200, Abcam) and an OCT4A‐specific antibody (Santa Cruz Biotechnology).
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6

Immunofluorescence Characterization of Stem Cell Markers

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The cultured cells were placed on 12 mm cover slips, fixed in 4% paraformaldehyde (PFA; Sigma) for 10 min at room temperature, washed three times with phosphate-buffered saline (PBS, Geno, China), and treated with a permeabilizing and blocking buffer (10% donkey serum, 0.225% Triton X-100) for 1 hour at room temperature. Then, the cells were incubated with the following primary antibodies: OCT4 (1 : 200, Abcam), Nanog (1 : 250, Abcam), SSEA4 (1 : 250, Abcam), TRA-1-60 (1 : 300, Abcam), SOX1 (1 : 300, Boster), SOX2 (1 : 300, Boster), Nestin (1 : 300, Abcam), Olig2 (1 : 500, Millipore), Pax6 (1 : 100, DSHB), HB9 (1 : 50, DSHB), Islet1 (1 : 250, Abcam), ChAT (1 : 100, Millipore), and TuJ1 (1 : 250, Abcam). All antibodies were diluted in antibody dilution buffer (2% donkey serum, 0.05%Triton X-100), and the cells were incubated with the antibodies overnight at 4°C. After three washing steps, the cells were incubated for 1 hour at room temperature with secondary antibodies: Alexa Fluor (488 or 555) donkey anti-mouse, donkey anti-rabbit, and donkey anti-goat. For the detection of AChR, the cocultured cells were incubated with Alexa Fluor 555-conjugated α-BTX (1 μg/ml, Invitrogen) for 1 hour at 37°C before fixation. The cells were then washed 2 times in PBS and fixed with 4% PFA. All cell samples were observed using an Olympus fluorescence microscope.
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7

Pluripotency and Lineage Marker Analysis

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Cells were grown in six-well plates and fixed with 4% paraformaldehyde. The following antibodies were used: OCT4 (1:200; Abcam 19857), NANOG (1:200; Abcam 21624), Tra1-81 (1:200; Abcam 16289), Tra1–60 (1:200; Abcam 16288), Smooth Muscle Actinin (SMA; 1:200; Abcam 5694), Tuj1 (1:200; Covance MMS-435P) and α-fetoprotein (1:200; Dako A 0008). Secondary antibodies used were from Jackson Immunoresearch: DyLight 549-coniugated AffiniPure Goat Anti-Rabbit IgG (1:250; 111-505-303); DyLight 488-coniugated AffiniPure Donkey Anti-mouse IgG (1:250; 715-485-150) and were used according to the manufacturer’s guidelines. Images were taken using an Axiovert 200M microscope (Zeiss).
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8

Immunofluorescence Analysis of Chondrocyte Spheres

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For immunofluorescence, frozen sections of chondrocyte spheres were washed with PBS for three times, these cell slices were permeabilized with cold 0.2% Triton X-100 (Sigma, USA) in PBS for 5 min. A step of enzymatic antigen retrieval with 0.1% Trypsin in PBS was performed prior to block for 1 h. After blocking, antibodies against Aggrecan (1:300; Abcam, UK), COL II (1:300; Abcam), SOX9 (1:200; Affinity), MMP13 (1:200; Affinity), COL X (1:500; Abcam), NANOG (1:300; Abcam), OCT4 (1:300; Abcam), TRA-1-60(1:300; Abcam) and Ki67 (1:300; Abcam) were added overnight. The following day, cells were washed three times with PBS and then incubated at 37 °C for 1 h with Alexa 594-conjugated goat anti-rabbit secondary antibody (1:300; Abcam) or Alexa 488-conjugated goat anti-mouse secondary antibody (1:300; Abcam). The cell nucleus was counterstained with DAPI (Beyotime, People’s Republic of China).
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9

Pluripotency Marker Immunofluorescence

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Cells grown on 10% HSt-PMEDSAH-g dishes were fixed in 4% paraformaldehyde for 10 min at room temperature followed by permeabilized with 0.1% Triton X-100 for 10 min. Primary antibodies raised against OCT3/4 (Cell signaling), SOX2 (MilliporeSigma, Burlin-tong, MA, USA), NANOG (Abcam, Cambridge, UK), TRA-1-60 (Abcam), and TRA-1-81 (MilliporeSigma) were diluted in 1% normal donkey serum and incubated overnight at 4 °C with gentle shaking and detected with respective secondary antibodies. Micrographs were captured using an EVOS®FL Cell Imaging System (Thermo Fisher Scientific).
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10

Immunofluorescence Staining of Stem Cells

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iMSCs and UMSCs at passage 5, iPSCs at passage 15 were fixed in 4% paraformaldehyde solution for 20 min and permeabilized with 0.5% Triton X-100 in PBS for 15 min at room temperature. After 120 min blocking with 3% BSA (SIGMA), cells were incubated with primary antibody overnight at 4 °C. On the next day, cells were washed, and stained with secondary antibodies (1:300, goat anti-rabbit IgG-Cy3; or 1:300, goat anti-mouse IgG-FITC) for 60 min at room temperature and then washed three times with phosphate-buffered saline (PBS). For human umbilical cord tissue, paraffin sections were cleared of paraffin, hydrated, and were blocked in 1% BSA for 2 h at room temperature and then incubated with primary antibodies at 4 °C in a humidifying box overnight, followed by incubation with secondary antibodies for 1 h in the dark at room temperature. The primary antibodies for respective cells include MKI67 (1:300, Abcam), OCT4 (1:200, Abcam), SOX2 (1:200, Abcam), NAONG (1:200, Abcam), SSEA4 (1:200, Abcam), TRA160 (1: 200, Abcam), THY1 (1:200, Abcam), IL6 (1:100, Abcam), HOXD11 (1:100, Abcam), NESTIN (1:100, Abcam). DAPI (4′,6-diamidino-2-phenylindole) (1:500) was used as counter-staining for nuclei. The images were captured and analyzed with the Olympus IX73 and Image J software.
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