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Proteins from the GenBank database were analyzed by an in silico 2D gel program JVirGel 2.2.3b [ 61].
The annotated T. spiralis proteins from the NCBI nonredundant database were analyzed by the on-line Blast2GO tool.
The raw 75 bp Solexa reads of the gsNd database were analyzed by the mapping algorithms, Efficient Large scale Alignment of Nucleotide Databases (ELAND), which is built in with the Solexa sequence analysis pipeline of the Illumina sequencer [ 24].
Over 3000 nucleotide and amino acid sequences of hypothetical proteins, as defined by the NCBI database, were analyzed by SMART and BLAST to determine domain structure and sequence similarity to known molecules.
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At the conclusion of the study, the whole database and the source documentation were independently audited to ensure the quality of the information collected, and the database was analyzed by an independent statistical company (Bioestatística, Montreal, QC, Canada).
The anonymized image database was analyzed by the author SW, a DEGUM (German Society for Ultrasound in Medicine) level II certified senior consultant in gynecology with 7 years' experience in breast ultrasound [ 16].
The two databases were analyzed by three-pattern recognition techniques: principal component analysis (PCA), discriminant function analysis (DFA) and cluster analysis (CA), respectively.
The archaeal accA gene fragments, together with alignable gene fragments from the Sargasso Sea and North Pacific Subtropical Gyre (ALOHA Station) metagenome databases, were analyzed by multiple sequence alignment.
Questionnaires and laboratory databases were analyzed by using NCSS 2004 (Kaysville, UT, USA) databases.
The remaining 7.91% of unigenes (5,779) that did not match sequences in the databases were analyzed by ESTScan to predict coding regions.
Transcript Unigenes unaligned to any of the protein databases were analyzed by a software named ESTScan [ 82] to determine the nucleotide sequence (5'-3') direction and amino sequence of the predicted coding region.
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