Tmspc 8

Manufactured by Shimadzu

Sourced in Japan

The TMSPC-8 is a high-performance liquid chromatography (HPLC) system manufactured by Shimadzu. It features an automated sample preparation and injection system designed to improve efficiency and productivity in analytical laboratories.

Automatically generated - may contain errors

Lab products found in correlation

Uv 2700 spectrometer, by Shimadzu (3 mentions) Uv 2700 spectrophotometer, by Shimadzu (2 mentions) Uv 1650 pc uv vis spectrophotometer, by Shimadzu (1 mentions) Rna hairpins, by Horizon Discovery (1 mentions) Uv 1800, by Shimadzu (1 mentions) Uv 2600, by Shimadzu (1 mentions) Uv 1700 spectrophotometer, by Shimadzu (1 mentions)

Spelling variants of this product

TMSPC-8 Tm analysis system (2 citations) TMSPC-8 Tm analysis accessory (2 citations) TMSPC-8 temperature controller (2 citations)

9 protocols using tmspc 8

Thermal Stability Analysis of Oligonucleotides

Check if the same lab product or an alternative is used in the 5 most similar protocols

UV melting experiments were conducted using a Shimadzu UV-1650PC UV-Vis spectrophotometer equipped with a T_m analysis accessory TMSPC-8 (Shimadzu, Kyoto, Japan). Equimolecular amounts of SSO and complementary RNA oligonucleotide were dissolved in 10 mM sodium phosphate buffer (pH 7.2) containing 10 mM NaCl to give a final strand concentration of 2.0 μM. The samples were boiled for 3 min, followed by slow cooling to room temperature. The absorption was recorded at 260 nm in the forward and reverse direction from 5°C to 95°C at a scan rate of 0.5°C/min. The first derivative was calculated from the smoothed UV melting profile. The peak temperatures in the derivative curve were designated as the melting temperature, T_m.

Shimo T., Tachibana K., Saito K., Yoshida T., Tomita E., Waki R., Yamamoto T., Doi T., Inoue T., Kawakami J, & Obika S. (2014). Design and evaluation of locked nucleic acid-based splice-switching oligonucleotides in vitro. Nucleic Acids Research, 42(12), 8174-8187.

+ Open protocol

+ Expand

Thermal Denaturation of RNA Duplexes

Check if the same lab product or an alternative is used in the 5 most similar protocols

Thermal denaturation profiles of the RNA duplexes (5 μM) with or without ANP77 (25 μM) in sodium cacodylate buffer (10 mM, pH 7) containing sodium chloride (100 mM) were recorded on a UV-2700 spectrophotometer (Shimadzu) equipped with a TMSPC-8 temperature controller and a 1 cm path-length cell. The absorbance of the samples was monitored at 260 nm from 2°C to 85°C with a heating rate of 1°C /min. T_m values were calculated by the median method. RNAs used were procured from Gene Design Inc. (Osaka, Japan).

Das B., Murata A, & Nakatani K. (2021). A small-molecule fluorescence probe ANP77 for sensing RNA internal loop of C, U and A/CC motifs and their binding molecules. Nucleic Acids Research, 49(15), 8462-8470.

+ Open protocol

+ Expand

Thermal Denaturation of G-Quadruplex DNA

Check if the same lab product or an alternative is used in the 5 most similar protocols

Thermal denaturation was carried out in 25 mM Tris–HCl buffer (pH 7.4) containing 100 mM KCl on a UV-2700 spectrometer (Shimadzu, Japan) equipped with a Shimadzu TMSPC-8 temperature controller. The absorbance was determined at 295 nm, while the temperature was programmed to increase from 20 to 95 °C with a heating rate of 1 °C/min. The DNA concentration was 5 μM for the ΔT_m measurements of dAGGG(TTAGGG)₃ in the absence or presence of either TMPyP4 tetratosylate or TMPyP4 tetrachloride in a 2:1 ligand/DNA molar ratio. The melting temperature (T_m) was the average value from three independent measurements [24 (link)].

Bai L.P., Liu J., Han L., Ho H.M., Wang R, & Jiang Z.H. (2014). Mass spectrometric studies on effects of counter ions of TMPyP4 on binding to human telomeric DNA and RNA G-quadruplexes. Analytical and Bioanalytical Chemistry, 406(22), 5455-5463.

+ Open protocol

+ Expand

UV Melting Profiles of G-Quadruplexes

Check if the same lab product or an alternative is used in the 5 most similar protocols

UV melting profiles of G-quadruplexes were measured at 295 nm using a UV-2700 spectrometer (Shimadzu, Japan) equipped with a Shimadzu TMSPC-8 temperature controller. Before measurement, DNA was annealed in 100 mM KCl or NaCl solution at 95°C for 5 min and cooled to room temperature, then incubated at 4°C overnight. The G-quadruplex DNA (5 μM) samples were heated from 4°C to 98°C with a heating rate of 1°C/min in the absence and presence of chelerythrine or TMPyP4 tetrachloride (10 and 30 μM for the K⁺-form and Na⁺-form G-quadruplex, respectively). Each absorbance profile of G-quadruplex at 295 nm was recorded using all the same substances except the DNA as a blank control. The melting temperature (T_m) was calculated by the median method from the average of three independent measurements.

Bai L.P., Hagihara M., Nakatani K, & Jiang Z.H. (2014). Recognition of Chelerythrine to Human Telomeric DNA and RNA G-quadruplexes. Scientific Reports, 4, 6767.

+ Open protocol

+ Expand

Thermal Stability Analysis of RNA Hairpins

Check if the same lab product or an alternative is used in the 5 most similar protocols

RNA hairpins were purchased from Dharmacon. Prior to use, RNA hairpins were deproteced in accordance with manufacturer instructions and purified using reverse phase HPLC and a gradient of MeCN in 50 mM aqueous triethylammonium acetate buffer (pH 7). The purity of the final products was confirmed by reinjection in HPLC. UV-melting experiments were performed on Shimadzu UV-2600 or UV-1800 spectrophotometers equipped with TMSPC-8 temperature controllers. RNA hairpins were dissolved at 10 μM in a buffer containing 50 mM potassium phosphate, 2 mM MgCl₂, 90 mM KCl, 10 mM NaCl, pH 7.4, vortexed, centrifuged, and heated to 95 °C for 3–5 minutes. The solution was snap cooled to 4 °C and kept at that temperature for 3–5 minutes. The RNA hairpins were allowed to warm to room temperature and incubated for 10 min. The modified PNAs were then added at 10 μM to the sample and the mixture was vortexed and centrifuged again followed by incubation at room temperature for 10 min. Samples were transferred to an eight-cell cuvette. A temperature ramp rate of 1 °C/ min was used, typically from 20°C to 95°C, and the absorbance was monitored at 300 nm. Typical melting curves are shown in Figure 3; the experimental results are listed in Table S2. Three replicates were then used to determine average and standard deviation in melting temperature (Tm).

Kumar V, & Rozners E. (2021). Fluorobenzene Nucleobase Analogues for Triplex-Forming Peptide Nucleic Acids. Chembiochem : a European journal of chemical biology, 23(3), e202100560.

+ Open protocol

+ Expand

Thermal Denaturation of RNA

Check if the same lab product or an alternative is used in the 5 most similar protocols

Thermal denaturation profiles were recorded on a UV-2700 spectrophotometer (Shimadzu) equipped with the TMSPC-8 temperature controller. The absorbance of RNAs (4 µM for RNA duplexes and 2 µM for repeat RNAs) without and with ligand (20 µM) in 10 mM sodium cacodylate buffer (pH 7.0) containing 100 mM NaCl was monitored at 260 nm from 2 to 100 °C (1 °C min^–1). T_m was calculated using the median method.

Shibata T., Nagano K., Ueyama M., Ninomiya K., Hirose T., Nagai Y., Ishikawa K., Kawai G, & Nakatani K. (2021). Small molecule targeting r(UGGAA)n disrupts RNA foci and alleviates disease phenotype in Drosophila model. Nature Communications, 12, 236.

+ Open protocol

+ Expand

Thermal Stability of DNA Duplexes

Check if the same lab product or an alternative is used in the 5 most similar protocols

Thermal denaturation profiles of the duplexes 5′-d(GTC CAG X GCA ACG)-3′)/5′-d(CGT TGC YZ CTG GAC)-3′ and 5′-d(GTC CAG WX GCA ACG)-3′)/5′-d(CGT TGC YZ CTG GAC)-3′ with general formula d(5′-X-3′/5′-YZ-3′) and d(5′-WX-3′/5′-YZ-3′) respectively (5 μM each strand) were measured in sodium cacodylate buffer (10 mM, pH 7) containing sodium chloride (100 mM) using SHIMADZU UV-2700 spectrometer equipped with SHIMADZU TMSPC-8 temperature controller using a 1 cm path length cell. The absorbance of the samples was monitored at 260 nm from 2°C to 95°C with heating rate of 1°C /min. T_m values were calculated by using the median or differential method.

Mukherjee S., Dohno C., Asano K, & Nakatani K. (2016). Cyclic mismatch binding ligand CMBL4 binds to the 5′-T-3′/5′-GG-3′ site by inducing the flipping out of thymine base. Nucleic Acids Research, 44(15), 7090-7099.

+ Open protocol

+ Expand

RNA 7-mer Seed Duplex Thermal Stability

Check if the same lab product or an alternative is used in the 5 most similar protocols

Both strands of the RNA 7-mer seed duplex were mixed to a 1:1 ratio (final 5 μM) in a solution of 1 M NaCl, 0.5 mM EDTA and 5mM Na₂HPO₄ (pH 7.5). Then, the absorbance of samples was monitored at 260 nm from 4 to 95°C at a heating speed of 1°C/min and analyzed using a UV-2550 spectrophotometer with the Thermal Melt Analysis System for Nucleic Acids TMSPC-8 (SHIMADZU). Tm values were calculated by the Two Point Average method (33 (link)).

Kume H., Hino K., Galipon J, & Ui-Tei K. (2014). A-to-I editing in the miRNA seed region regulates target mRNA selection and silencing efficiency. Nucleic Acids Research, 42(15), 10050-10060.

+ Open protocol

+ Expand

Thermodynamic Characterization of DNA Structures

Check if the same lab product or an alternative is used in the 5 most similar protocols

All samples were prepared by mixing the DNA strands (1.0 μM) in 10 mM MOPS buffer (pH 7.0) containing 100 mM NaCl. After addition of NiSO₄·7H₂O (Soekawa) or EDTA, the solutions were heated to 85 °C and cooled slowly to 5 °C at the rate of 1.0 °C min^–1. Absorbance at 260 nm was monitored by a UV-1700 spectrophotometer (Shimadzu) equipped with a TMSPC-8 temperature controller while the temperature was raised from 5 °C to 85 °C at the rate of 0.2 °C min^–1. A drop of mineral oil was laid on the sample to prevent evaporation. Normalized absorbance shown in the figures was calculated as follows:Normalized A₂₆₀ = {A₂₆₀(t °C) – A₂₆₀(5 °C)}/{A₂₆₀(85 °C) – A₂₆₀(5 °C)} × 100.
The melting temperature (T_m) was determined as an inflection point of a melting curve using the LabSolutions T_m analysis software (Shimadzu) with a 17-point adaptive smoothing program. Average T_m values of at least 3 independent runs are shown in Tables S2–S4 in the ESI.†

Takezawa Y., Yoneda S., Duprey J.L., Nakama T, & Shionoya M. (2016). Metal-responsive structural transformation between artificial DNA duplexes and three-way junctions †Electronic supplementary information (ESI) available: Full experimental procedures, thermal denaturation experiments, ESI-MS and NMR spectra, and other experimental results. See DOI: 10.1039/c6sc00383d. Chemical Science, 7(5), 3006-3010.

+ Open protocol

+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Revolutionizing how scientists
search and build protocols!