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NGS studies of the CLL genome [ 33, 34] have effectively elucidated the level of genomic complexity in CLL, and have revealed that the average number of non-silent mutations (that is, mutations that alter the protein sequence) is 10 to 20 per each sequenced CLL sample (out of approximately 1,000 somatic mutations per sample detected genome-wide).
The sequencing and the subsequent analyses of the human genome have raised important questions about the development and maintenance of genomic complexity in our species [1], [2].
Lopez-Corral, L. et al. SNP-based mapping arrays reveal high genomic complexity in monoclonal gammopathies, from MGUS to myeloma status.
Paralog gene trees, which reflect the increase of genomic complexity in the evolution, can be complicated and ambiguous.
To further examine genomic complexity in hematopoietic cancers previously studied by WGS of bulk tumor samples, Hughes and colleagues performed targeted sequencing to genotype more than 1900 SNVs in single cancer cells from three patients initially diagnosed with myelodysplastic syndrome who progressed to secondary acute myeloid leukemia, the most common form of acute leukemia in adults [55].
Furthermore, the observed higher degree of genomic complexity in tumors from young versus elderly patients also may be indicative of a difference in aggressiveness.
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These methodologies enable targeted sequencing of regions of interest after reduction in genomic complexity, resulting in decreased sequencing costs.
Instead the recently sequenced genomes of animals from interspersed time points clearly shows that much of the genomic complexity seen in the modern vertebrates is very ancient than was previously anticipated (by 2R proponents).
These observations show a general trend of genomic complexity increasing in evolutionarily advanced species.
To date, genomic sequencing efforts on other large, repeat-rich, plant genomes such as wheat (Triticum estivum L ., barley (Hordeum vulgare L ., maize (Zea mays L ., and sorghum (Sorghum bicolor L). have been hindered by genomic complexity resulting in sequence assembly problems [ 24].
The key alterations identified more recently by aCGH in classic LCIS, florid/extensive LCIS and PLCIS are 1q gain and 16q loss, with increased genomic complexity observed in the latter two groups of lesions, including loss of 8p, 11q and 17p and amplifications at 11q13 (CCND1) and 17q12 (ERBB2) [ 8, 14, 34].
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