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Most microarray experiments use the Columbia-0 ecotype as experimental material, which represents an unusual example for a mitochondrial gene transfer event as it contains a 618±42 kb insert in the pericentric region of chromosome 2 [10].
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Extracted RNA was then used in microarray experiments using Illumina Sentrix HT-12_v3_BeadChip arrays (Illumina, San Diego, California).
Microarray experiments using mRNA from air-dried leaves and roots of rice were performed in an attempt to study genes involved in acute dehydration response.
Microarray experiments using mRNA from air-dried leaves and roots of rice were performed in an attempt to study genes involved in dehydration response.
All reactions were performed on the cDNA synthesized from the same RNA extraction as the microarray experiments using SuperScript™ III First-Strand Synthesis SuperMix (Invitrogen, Carlsbad, CA, USA).
All qRT-PCR reactions were performed on complementary DNA (cDNA), synthesized from the same RNA extracted for use in the microarray experiments, using SuperScript™ III First-Strand Synthesis SuperMix (Invitrogen, CA, USA).
Microarray experiments used Human Genome U133 Plus 2.0 arrays from Affymetrix, containing 54675 probe sets.
A number of papers have described methods for assessing selected dataset requirements in microarray experiments using statistical criteria [12].
We have validated our approach by interpreting several publicly available expression microarray experiments using the Atlas of Signaling pathway.
These experiments indicate that for a wide range of experimental conditions, microarray experiments using the Fundulus array are both accurate and precise.
Reverse transcription was performed with 500 ng total RNA (same as used in microarray experiments) using the iScript cDNA synthesis kit (Bio-Rad).
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