Supplementary data for article: Beškoski, V.; Takemine, S.; Nakano, T.; Slavković-Beškoski, L.; Gojgić-Cvijović, G. D.; Ilić, M. V.; Miletić, S. B.; Vrvić, M. M. Perfluorinated Compounds in Sediment Samples from the Wastewater Canal of Pancevo (Serbia) Industrial Area. Chemosphere 2013, 91 (10), 1408–1415. https://doi.org/10.1016/j.chemosphere.2012.12.079

Supplementary material for: [https://doi.org/10.1016/j.chemosphere.2012.12.079]Related to published version: [http://cherry.chem.bg.ac.rs/handle/123456789/1354

Effect of Saxagliptin on Endothelial Function in Patients with Type 2 Diabetes : A Prospective Multicenter Study

The dipeptidyl peptidase-4 inhibitor saxagliptin is a widely used antihyperglycemic agent in patients with type 2 diabetes. The purpose of this study was to evaluate the effects of saxagliptin on endothelial function in patients with type 2 diabetes. This was a prospective, multicenter, interventional study. A total of 34 patients with type 2 diabetes were enrolled at four university hospitals in Japan. Treatment of patients was initially started with saxagliptin at a dose of 5 mg daily. Assessment of endothelial function assessed by flow-mediated vasodilation (FMD) and measurement of stromal cell-derived factor-1α (SDF-1α) were conducted at baseline and at 3 months after treatment with saxagliptin. A total of 31 patients with type 2 diabetes were included in the analysis. Saxagliptin significantly increased FMD from 3.1 ± 3.1% to 4.2 ± 2.4% (P = 0.032) and significantly decreased total cholesterol from 190 ± 24 mg/dL to 181 ± 25 mg/dL (P = 0.002), glucose from 160 ± 53 mg/dL to 133 ± 25 mg/dL (P < 0.001), HbA1c from 7.5 ± 0.6% to 7.0 ± 0.6% (P < 0.001), urine albumin-to-creatinine ratio from 63.8 ± 134.2 mg/g to 40.9 ± 83.0 mg/g (P = 0.043), and total SDF-1α from 2108 ± 243 pg/mL to 1284 ± 345 pg/mL (P < 0.001). These findings suggest that saxagliptin is effective for improving endothelial function

Stark spectroscopy at Balmer-αline of atomic hydrogen for measuring sheath electric field in a hydrogen plasma

This paper reports a diode laser based system which is applicable to the measurement of electric field in the sheath region of a hydrogen plasma. The electric field is deduced from the Stark spectrum of the Balmer-α line of atomic hydrogen. Saturation spectroscopy with a Doppler-free spectral resolution is adopted to detect the Stark effects of the low energy states. We have demonstrated a detection limit of 10 V cm−1, which is a sufficient sensitivity for investigating the structures of the sheath electric fields in low-temperature plasmas. We have discussed the detection limit, the measurement ambiguity, the spatial resolution, and the limitation of the developed method

Performance of sheath electric field measurement by saturation spectroscopy in Balmer-α line of atomic hydrogen

We developed a diode laser-based system for measuring the sheath electric fields in low-temperature plasmas. The Stark spectrum of the Balmer-α line of atomic hydrogen was measured by saturation spectroscopy with a fine spectral resolution. The spectrum observed experimentally was consistent with the theoretical Stark spectrum, and we succeeded in evaluating the electric field strength on the basis of the experimental Stark spectrum. A sensitive detection limit of 10 V/cm was achieved by the developed system

Evaluation of biomolecular distributions in rat brain tissues by means of ToF-SIMS using a continuous beam of Ar clusters

Time-of-flight secondary ion mass spectrometry (ToF-SIMS) provides detailed chemical structure information and high spatial resolutionimages. Therefore, ToF-SIMS is useful for studying biological phenomena such as ischemia. In this study, in order to evaluate cerebral microinfarction, the distribution of biomolecules generated by ischemia was measured with ToF-SIMS. ToF-SIMS data sets were analyzed by means of multivariate analysis for interpreting complex samples containing unknown information and to obtain biomolecular mapping indicated by fragment ions from the target biomolecules. Using conventional ToF-SIMS (primary ion source: Bi cluster ion), it is difficult to detect secondary ions beyond approximately 1000 u. Moreover, the intensity of secondary ions related to biomolecules is not always high enough for imaging because of low concentration even if the masses are lower than 1000 u. However, for the observation of biomolecular distributions in tissues, it is important to detect low amounts of biological molecules from a particular area of tissue. Rat braintissue samples were measured with ToF-SIMS (J105, Ionoptika, Ltd., Chandlers Ford, UK), using a continuous beam of Ar clusters as a primary ion source. ToF-SIMS with Ar clusters efficiently detects secondary ions related to biomolecules and larger molecules. Molecules detected by ToF-SIMS were examined by analyzing ToF-SIMS data using multivariate analysis. Microspheres (45 μm diameter) were injected into the rat unilateral internal carotid artery (MS rat) to cause cerebral microinfarction. The rat brain was sliced and then measured with ToF-SIMS. The brain samples of a normal rat and the MS rat were examined to find specific secondary ions related to important biomolecules, and then the difference between them was investigated. Finally, specific secondary ions were found around vessels incorporating microspheres in the MS rat. The results suggest that important biomolecules related to cerebral microinfarction can be detected by ToF-SIMS

eVIDENCE: a practical variant filtering for low-frequency variants detection in cell-free DNA

血中遊離DNAの高精度解析手法を開発 --リキッドバイオプシーによるゲノム医療へ--. 京都大学プレスリリース. 2019-10-29.Plasma cell-free DNA (cfDNA) testing plays an increasingly important role in precision medicine for cancer. However, circulating cell-free tumor DNA (ctDNA) is highly diluted by cfDNA from non-cancer cells, complicating ctDNA detection and analysis. To identify low-frequency variants, we developed a program, eVIDENCE, which is a workflow for filtering candidate variants detected by using the ThruPLEX tag-seq (Takara Bio), a commercially-available molecular barcoding kit. We analyzed 27 cfDNA samples from hepatocellular carcinoma patients. Sequencing libraries were constructed and hybridized to our custom panel targeting about 80 genes. An initial variant calling identified 36, 500 single nucleotide variants (SNVs) and 9, 300 insertions and deletions (indels) across the 27 samples, but the number was much greater than expected when compared with previous cancer genome studies. eVIDENCE was applied to the candidate variants and finally 70 SNVs and 7 indels remained. Of the 77 variants, 49 (63.6%) showed VAF of < 1% (0.20–0.98%). Twenty-five variants were selected in an unbiased manner and all were successfully validated, suggesting that eVIDENCE can identify variants with VAF of ≥ 0.2%. Additionally, this study is the first to detect hepatitis B virus integration sites and genomic rearrangements in the TERT region from cfDNA of HCC patients. We consider that our method can be applied in the examination of cfDNA from other types of malignancies using specific custom gene panels and will contribute to comprehensive ctDNA analysis

Perfluorinated compounds in sediment samples from the wastewater canal of Pancevo (Serbia) industrial area

Perfluoroalkyl sulfonates (PFSAs) and perfluoroalkyl carboxylates (PFCAs) were analyzed in sediment samples from the wastewater canal draining the industrial complex of Pancevo, Serbia (oil refinery, petrochemical plant, and fertilizer factory). The canal is directly connected to Europe's second largest river, the Danube, which drains its water into the Black Sea. Perfluorooctane sulfonate (PFOS) up to 5.7 ng d(-1) weight (dw) and total Perfluorinated compounds (PFCs) up to 6.3 ng g(-1) dw were detected. Compared to other reports, high levels of PFOS were found, even though PFCs are not used in the industrial production associated with this canal. The PFOS concentration in water was recalculated using the adsorption coefficient, K-oc from literature. Using the average output of wastewater from the canal, a mass load of 1.38 kg PFOS per year discharged in the Danube River has been calculated, which undoubtedly points to the contribution to global persistent organic pollution of surface waters originating from this industrial place.Supplementary material: [http://cherry.chem.bg.ac.rs/handle/123456789/3512