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Figure 3: CORE pathway is partially a response to respiration decline.
CORE pathway is largely not a response to the decline in mitochondrial function (MMP), or failure of the RC.
One of the hallmarks of the CORE pathway is the upregulation of multiple conformational maintenance machineries (Fig. 6a).
These results confirm that the overlap between the CORE pathway and RC uncoupling or an RC defect is minor and that the CORE pathway is unlikely a response to defective protein import and only in small part a response to the decline in respiration.
By comparison to genome-wide ChIP-Seq data sets, we observe that this core pathway is enriched in genes under NF-κB/RelA control.
If the hypothesized core pathway is validated by experiments, or consistent with prior knowledge, the association with the core pathway can prioritize the driver mutation.
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Specifically, a potential core pathway was excluded either if its BioCyc44-annotated taxonomic range did not include any human-associated microbial genera (defined as genera detected in at least 5 HMP subjects with relative abundance >10−3), or if >50% of pathway copies had 'unclassified' taxonomic attribution in >25% of samples.
The phylogeny and evolution of the chlorophyll biosynthesis core pathway were analyzed both at the gene and pathway level.
These genes, alongside other key genes of the core pathway, are assumed to be differentially regulated in different genetic backgrounds.
hh was first identified as a segment polarity gene in Drosophila and the core pathway was delineated by fly geneticists.
This concept has been instrumental in understanding pathways leading to cancer, where mutations in any component of a given equivalence group (also called a core pathway) are mutually exclusive and tend not to co-occur in the same tumour [ 41, 42 ].
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