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Quality Check, Processing and Alignment of High-throughput Sequencing Reads
Published in Altuna Akalin, Computational Genomics with R, 2020
The sequencing technologies usually produce basecalls with varying quality. In addition, there could be sample-specific issues in your sequencing run, such as adapter contamination. It is standard procedure to check the quality of the reads and identify problems before doing further analysis. Checking the quality and making some decisions for the downstream analysis can influence the outcome of your project.
Bioengineering Aids to Reproductive Medicine
Published in Sujoy K. Guba, Bioengineering in Reproductive Medicine, 2020
Gas55 tends to leak out of the uterus along the cervical canal past the hysteroscope. To limit this outflow a “portio-adaptor” is very useful. The portio adaptor is essentially a suction cup (Figure 3.31). The device has a straight cannula a small portion of which enters the cervical canal. At one end there is a cup connected by means of a narrow pipe to a suction device. When air is removed from the cup the cup holds on to the cervical lip firmly. The hysteroscope is passed along the cannula. If the fit of the hysteroscope in the cannula is good there is very little gas leakage. A major advantage of the adapter is that it helps in stabilizing the hysteroscope on the cervix thus making observation more convenient.
Balloon buckles for the repair of retinal detachment
Published in A Peyman MD Gholam, A Meffert MD Stephen, D Conway MD FACS Mandi, Chiasson Trisha, Vitreoretinal Surgical Techniques, 2019
Harvey Lincoff, Ingrid Kreissig
In 1979, we described a balloon-tipped catheter to treat retinal detachments.1 A deflated balloon is inserted between Tenon’s capsule and the sclera to a position overlying the retinal break and then inflated. The inflated balloon creates a buckle effect that is perceived ophthalmoscopically. The balloon catheter consists of a soft plastic tube with a siliconized latex balloon at one end and a plastic adapter at the other end. The adapter accepts a steel stylette to facilitate insertion and has a self-sealing valve for inflation.2 The balloon is inflated by inserting a 1-ml syringe into the valve and injecting sterile water (Fig. 7.1). The catheter is made in two lengths: 90 and 125 mm.
Comparison of the ELISA method with the nephelometric method for determination of serum amyloid A in patients with COVID 19
Published in Scandinavian Journal of Clinical and Laboratory Investigation, 2023
Boris Jegorović, Neda Milinković, Marija Sarić Matutinović, Sandra Šipetić Grujičić, Svetlana Ignjatović
This method comparison study included 80 serum samples tested in parallel by two methods analyzed. Serum samples were obtained from the patients with the COVID-19, examined in the outpatient setting of the Clinic for Infectious and Tropical Diseases of the University Clinical Center of Serbia. Study included 34 female and 46 male patients. The average age of patients (95% Confidence Interval for mean, CI) was 56.1 (51.6–60.7) years. The average duration of infection was 6.3 (5.5–7.2) days. Serum samples were collected strictly following standard venipuncture procedures [9]. Becton & Dickinson closed venipuncture systems (reusable adapter, 22 standard wire gauge diameter needles, and serum separator tube disposable gel vacutainers) were used for blood collection. After aliquoting, the samples were stored at −20 °C until analysis. We have determined serum amyloid A levels from each specimen in duplicate by the nephelometry and comparative method. Specimens were selected to cover the entire working range and represented the spectrum of values expected in routine use. This research was approved by the decision of the Ethics Commission of the Medical Faculty of the University of Belgrade under number 1322/II-1,2 from 24 February 2022.
Comparison of tiotropium delivery with the ODAPT adapter and a valved holding chamber
Published in Canadian Journal of Respiratory, Critical Care, and Sleep Medicine, 2021
Rym Mehri, Abubakar Alatrash, Nicholas Ogrodnik, Kenny Lee Slew, Edgar A. Matida
The experimental setup was then disassembled and washed separately to quantify the amount of medication deposited within each component. All the different components were washed using distilled water to dissolve the medication. The ACI deposition plates were placed into separate Petri dishes with 15 mL of distilled water and were shaken for 1 minute each. The face, facemask, and ODAPT adapter (for test case 3 and 4) were carefully cleaned with 10 mL, 10 mL and 8 mL of distilled water, respectively. The induction port (IP) only (for test case 1 and 2) or the IP and the tubing coupler (for the test case 3, 4, 5 and 6) were washed with 15 mL of distilled water. For test case 5 and 6, the VHC was washed using 25 mL of distilled water. Each component was left in their respective solution for 2 hours to allow for a consistent dissolution of the medication. Spectrophotometry was used to obtain the concentration of each solution at 237 nm (8453 UV-Visible Spectrophotometer, Agilent Technologies, Santa Clara, CA). Further details on the spectrophotometry methodology are provided in Mehri et al.15 Three repeats of each test were performed.
Registry study on failure incidence in 1,127 revised hip implants with stem trunnion re-use after 10 years of follow-up: limited influence of an adapter sleeve
Published in Acta Orthopaedica, 2019
Saverio Affatato, Monica Cosentino, Francesco Castagnini, Barbara Bordini
The purpose of this study was to investigate the role of adapters in revision hip arthroplasties with retained stems. We found that the use of adapter sleeves statistically significantly reduced the rate of re-revisions. However, no cases of re-revisions due to metallosis or head fractures were reported. Moreover, the 2 groups differed strongly in terms of head materials and head size. When only Delta heads were involved, the re-revision rates were similar between the “adapter sleeve” and “no adapter sleeve” cohorts. Thus, the role of adapter sleeves seems clinically negligible at mid-term follow-up. Indeed, the current pertinent literature involving clinical evaluations tends to support this finding. Hannouche et al. (2010) performed a retrospective investigation on the fracture risk of ceramic heads implanted on retained trunnions without the use of an adapter sleeve. Their investigation was limited to 61 revised hip implants, following the follow-up of alumina–alumina primary THAs. The authors observed no fractures and suggested replacing the ceramic head when the femoral stem was fully integrated. Kim et al. (2018) performed a prospective study to assess the prevalence of ceramic head fractures on retained trunnions without interposition of titanium adapter sleeves in 100 implants of the same material and design. They found no cases of ceramic head fractures, ascribed to the relatively pristine trunnion surface—assessed before fixing the new head. Moreover, the authors suggested that a titanium adapter sleeve was not necessary with minimal fretting and/or corrosion scores.