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A comprehensive phenotypic analysis (including a subset of behavioral tests derived from the Irwin screen) revealed no notable abnormalities across a wide range of behaviors as well as assays for cardiac, immune system, endocrine, and ophthalmic function (for the full list of assays see Table S2).
A list of assays used in this study is given in Table 2. Individual reactions were carried out with 2 ng of total RNA using the following cycling conditions: 50°C for 15 min, 95°C for 2 min, followed by 40 cycles of 95°C for 10 sec and 60°C for 30 sec.
Although genetic and cellular studies are currently ongoing to classify such variants [ 54- 56], the fact that they map to these conserved ESEs suggests that RNA splicing analyses (e.g. Tesoriero and coworkers [ 9]) should be included in the list of assays used to investigate the consequences of these sequence changes.
We developed a list of assays of biological activity that relied on the strengths and expertise of the toxicologists within the group (Table 1).
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A previously published dashboard application, the Toxcast Dashboard [99], also provides full access to single concentration assay data in the list of 'tested' assays endpoints if multi-concentration data are unavailable.
The complete list of assay primers and probes is shown in Additional file 3. Oligonucleotides were purchased from Biosearch Technologies Inc. (Novato, CA), Integrated DNA Technologies Coralvillee, IA) and Eurogentec (San Diego, CA).
There are numerous published methods claiming to measure total antioxidant capacity (TAC) in vitro; from the list of TAC assays in the literature, the ferric-reducing antioxidant power (FRAP) and cupric reducing antioxidant out (CUPRAC) methods are two most commonly used and are proposed for standardization during the First International Congress on Antioxidant Methods.
This script produced lists of assays matching search terms, which we reviewed manually.
Complete lists of assays (including the miRBase version used for assay design) on the GeneChip miRNA 2.0 Array (Affymetrix), the miRCURY Ready-to-Use PCR V1.M panels (Exiqon), and the TaqMan® Human MicroRNA Array v3.0 TLDA cards (ABI) were obtained from the manufacturers.
Because of the dynamic nature of cell culture work, the group of assays listed here should not be viewed as encompassing all cell systems of value with regard to teratogenicity testing; instead, the list represents several of the more prominent systems now being evaluated by the scientific community.
The full list of genes assayed by TLDA are listed in supplementary Table S1.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com