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Gene specific primers for real-time qPCR assay were selected from the Primer Bank database (http://pga.mgh.harvard.edu/primerbank/) and provided by Invitrogen.
The seven cancer-related genes in the Onco type DX Colon assay were selected from a panel of 761 genes for their consistent association with colon cancer recurrence in 4 large and independent development studies [ 6].
The two peptides used in the SRM assay were selected from this list of proteotypic peptides based on the following criteria: reproducibility of the retention time, peak shape, absence of matrix interferences, limit of detection, calibration curve linearity, and the consistency of the collision energy for peptide fragmentation.
Primers and probe for Real-TM PCR assay were selected from sequences of the cryptic plasmid (GenBank accession nos M19487, Y00505, J03321, X06707 and X07547) of five different C. trachomatis strains (serotypes A, B, D, L1 and L2, respectively), and designed using Primer Express software (Applied Biosystems)).
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The antibody for the EL-NE assay was selected from a total of 60 antibodies.
The SNPs used to develop the mini-assays were selected from the 44 K SNP database and additional re-sequencing data based on their distribution across the genome and their ability to detect polymorphism in the specific parental accessions used to construct the CSSLs.
At the start of the study, SNP assays were selected from those available at the Core Genotyping Facility CGFF) of the Division of Cancer Epidemiology and Genetics (National Cancer Institute), using our own assessment of linkage disequilibrium between the SNPs from HapMap and previous evidence from the literature.
The assays were selected from a commercial NovaScreen panel (NVS) for preclinical drug development.
These results are valid because most of the SNPs on the Infinium and GoldenGate assays were selected from the transcriptome sequences.
These assays were selected from a review of literature published through the spring of 1986 that generated over 100 references on teratological research using cell-based systems.
TaqMan assays were selected based on several criteria: 1) only pre-developed and pre-validated gene expression assays were selected from Applied Biosystems (ABI, Foster City, CA, U.S.A ., for which the company guarantees amplification efficiency over 96%.
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