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Omcl tr4

Manufactured by Olympus
Sourced in Japan

The OMCL-TR4 is a compact and versatile laboratory equipment designed for use in various scientific applications. It functions as a temperature-controlled reaction block, capable of maintaining a precise and stable temperature environment for conducting experiments or reactions. The OMCL-TR4 features multiple sample positions and can be programmed to follow specific temperature profiles. This product is suitable for a range of laboratory tasks where temperature control is a critical factor.

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8 protocols using omcl tr4

1

Preparing Collagen-Coated Surfaces for SMFS

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To prepare Cn-coated tips and substrates for SMFS and SCFS experiments, gold-coated glass coverslips and cantilevers (OMCL-TR4; Olympus Ltd., Tokyo, Japan) were immersed overnight in an ethanol solution containing 1 mM 10% 16-mercaptododecahexanoic acid–90% 1-mercapto-1-undecanol (Sigma), rinsed with ethanol, and dried with N2. Tips and substrates were then immersed for 30 min in a solution containing 10 mg ml−1N-hydroxysuccinimide (NHS) and 25 mg ml−1 1-ethyl-3-(3-dimethylaminopropyl)-carbodiimide (EDC) (Sigma), rinsed 5 times with Ultrapure water (ELGA LabWater), incubated with 0.2 mg ml−1 of collagen type II for 1 h, rinsed further with PBS buffer, and then immediately used without dewetting.
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2

Silanized Gold Substrate Functionalization

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Gold-coated glass coverslips and cantilevers (OMCL-TR4; Olympus, Tokyo, Japan; nominal spring constant, ~0.02 N ⋅ m−1) were immersed overnight in an ethanol solution containing 1 mM 10% 16-mercaptododecahexanoic acid--90% 1-mercapto-1-undecanol (Sigma), rinsed with ethanol, and dried with N2. Substrates and cantilevers were then immersed for 30 min in a solution containing 10 mg ⋅ ml−1 NHS and 25 mg ⋅ ml−1 1-ethyl-3-(3-dimethylaminopropyl)-carbodiimide (Sigma), rinsed with ultrapure water (ELGA LabWater), incubated with 0.1 mg ⋅ ml−1 Lor for 1 h, rinsed further with PBS buffer, and then immediately used without dewetting. For some experiments, cantilevers were functionalized with L2v instead of Lor.
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3

Functionalization of Cantilevers with ClfB

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For experiment with purified fragments, gold cantilevers (OMCL-TR4; Olympus, Tokyo, Japan) were functionalized with ClfBN2N3 via the NHS chemistry described above. In addition, oxide-sharpened microfabricated Si3Ni4 cantilevers (MSCT; Bruker) were also functionalized with ClfBN2N3 with polyethylene glycol (PEG) linkers as described elsewhere (21 (link), 37 (link)).
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4

Nanomechanical Characterization of Engineered Protein Interactions

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Gold-coated glass coverslips and cantilevers (OMCL-TR4, Olympus Ltd.; nominal spring constant of ~0.02 N m−1) were incubated with 0.1 mg mL−1 of CnoXN-link/C38A/C63A, the last C-terminal 10 amino acids of CnoX fused to a linker (CGGGSGGGYRRQLYALLY), or GroELD490C solution for 1 h, rinsed with buffer D, and then immediately used without dewetting. We performed measurements at room temperature in 50 mM Tris pH 8, 150 mM NaCl, 1 mM EDTA with a Force Robot 300 AFM (JPK Instruments). We recorded multiple (32 × 32) force–distance curves over an area of 500 x 500 nm2 with an applied force of 250 pN, a constant approach, and a retraction speed of 1,000 nm s−1. A histogram was generated based on the force of the last rupture event for each curve. We measured the spring constants of the cantilevers by the thermal noise method and analyzed these data with data-processing software from JPK Instruments.
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5

Preparation of vWF-Coated Surfaces

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Gold-coated glass coverslips and cantilevers (OMCL-TR4, Olympus Ltd., Tokyo, Japan; nominal spring constant, ∼0.02 N m−1) were immersed overnight in an ethanol solution containing 1 mM 10% 16-mercaptododecahexanoic acid–90% 1-mercapto-1-undecanol (Sigma), rinsed with ethanol, and dried with N2. Substrates and cantilevers were then immersed for 30 min into a solution containing 10 mg ml−1N-hydroxysuccinimide (NHS) and 25 mg ml−1 1-ethyl-3-(3-dimethylaminopropyl)-carbodiimide (EDC [Sigma]), rinsed with Ultrapure water (ELGA LabWater), incubated with 0.1 mg ml−1 vWF (Merck) for 1 h, rinsed further with PBS buffer, and then immediately used without dewetting.
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6

Bacterial Adhesion Quantified by AFM

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Gold cantilevers (OMCL-TR4, Olympus Ltd., Tokyo, Japan) with a nominal spring constant of ~0.02 N×m-1 were functionalized with fibrinogen using thiols chemistry as previously described for substrates. The spring constants of the cantilevers were measured using the thermal noise method. Bacteria from exponential phase culture were immobilized by mechanical trapping into porous polycarbonate membranes (Millipore, Billerica, USA) with a pore diameter of 0.8 μm. After filtering a cell suspension, the membrane was rinsed with PBS, cut into piece (1 x 1 cm2) and attached to a steel sample puck using a small piece of double-face adhesive tape. The mounted sample was transferred into the AFM liquid cell while avoiding de-wetting. Bare tips were first used to localize and image individual cells and then replaced by functionalized tips. Adhesion maps were obtained by recording 32-by-32 force-distance curves on areas of 500 x 500 nm2, using an applied force of 250 pN, a constant approach-retraction speed of 1 μm×s-1 and a contact time of 100 or 500 ms. Data were analyzed using the Nanoscope software from Bruker (Santa Barbara, USA). Adhesion forces were calculated considering the last peak for each curve and adhesive events are displayed as light pixels. For each condition, experiments were repeated for at least 3 times with independent cultures.
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7

Synthesis and Functionalization of Thiol-Terminated Glycosides

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The two thiol-terminated alkyl glycosides (Man-thiol and Gal-thiol) (Figure 2a) were obtained using standard procedures from d-mannose and d-galactose, respectively. Basically, the synthetic scheme developed for the synthesis of heptyl-α-D-mannose by Gouin and Kovensky37 (link) was followed: the two sugars were activated at the anomeric position by a trichloro-acetimidate and were coupled to the corresponding primary alcohols using BF3.Et20 as promotor. A standard Zemplén deprotection afforded the final pure glycosides. For AFM tips functionalization, gold coated cantilevers (OMCL-TR4, Olympus Ltd., Tokyo, Japan) were immersed for 12 h in 1 mM solutions of Man-thiol or Gal-thiol in water. Functionalised tips were rinsed with water before used.
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8

Fibrinogen Immobilization on Gold Surfaces

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Gold-coated glass coverslips and cantilevers (OMCL-TR4; Olympus; nominal spring constant, ~0.02N m-1) were immersed overnight in an ethanol solution containing 1 mM 10% 16-mercaptododecahexanoic acid—90% 1-mercapto-1-undecanol (Sigma), rinsed with ethanol, and dried with N2. Substrates and cantilevers were then immersed for 30 min in a solution containing 10 mg ml-1 NHS and 25 mg ml-1 1-ethyl-3-(3-dimethylaminopropyl)-carbodiimide (Sigma), rinsed with ultrapure water (ELGA LabWater), incubated with 0.1 mg ml-1 of fibrinogen for 1 h, rinsed further with PBS buffer, and immediately used without de-wetting.
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