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RNA was extracted from clinical specimens as previously described [18].
The BED was performed on HIV-1 seropositive HIV-1 seropositiveouspecimensibed [21].
Primary OS cells were isolated from resected OS specimens as previously described [15], [40], [41].
Clinicopathological data was available for all specimens as previously published including disease recurrence [26], [27] and asbestos fibre burden [28].
Sirius red (Direct Red 80; Sigma, St . Louis MO) staining was performed to evaluate the degree of fibrosis in the specimens as previously described.[16], [19] Birefringence pattern and hue were evaluated using polarized light microscopy to determine collagen density, pattern of deposition, and maturity.
Meniscal cells were isolated from meniscal specimens as previously described [ 11].
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Swab specimens were collected as previously described [25] with some modifications and placed directly into 1 ml STGG [23], then transported to the laboratory on wet ice for culture and processing.
Specimens were examined as previously described [ 28].
Specimens were collected as previously described [ 6], immediately prior to the LEEP (Loop electrosurgical excision procedure) using bite biopsy targeting a small portion of the affected epithelium.
To minimize contamination of gynecologic specimens by blood, exfoliated cervical cells (used for HPV DNA testing) were obtained by cervicovaginal lavage (CVL) prior to collection of a cervical cytology specimen, as previously described [13].
Since recombination is a mechanism of genetic variability, the SimPlot/BootScan software (http://sray.med.som.jhmi.edu/SCRoftware/) was used to evaluate the existence of any recombination event in ompA of each specimen, as previously described [53].
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