The RNA-Seq platform has become a key technology for quantifying the transcriptional response in nonmodel organisms or those with genome characteristics extremely difficult to whole-genome sequencing [ 26, 27].
Besides, RNA-Seq is an efficient means to generate functional genomic data for non-model organisms or those with genome characteristics extremely difficult to whole-genome sequencing [ 8, 9].
As for the sometimes choppy writing, "it's difficult to organize whole articles, so people don't edit them as a whole," she said.
In bread, it's difficult to use whole grains exclusively because you usually want the glutens in white flour for stretchiness and toughness.
The protein-receptor complex was difficult to analyze whole, so the researchers broke it down into functional crystal fragments, which were then analyzed through crystallography (in which the pattern of X-ray diffraction through a crystal is analyzed to determine structure).
But, as compared with model organisms, the gene information for platyhelminths is very limited, and this makes it difficult to perform whole transcriptome comparison.
Although the reference onion proteins matched more of the genes predicted by ISGAP than those predicted by six-frame translation, it was difficult to evaluate whole annotated genes because of the small number of known onion proteins in GenBank.
However, due to the fragmented structure of the current salmon genome assembly, which consists of a large Sanger-sequenced data-set with a contig N50 of 9342 bp, it was difficult to predict whole protein lengths and therefore also splice variants in a large fraction of the expressed genes.
Furthermore, the requirement to register the clinical dataset to smoothed versions of the digital Hoffman brain phantom to determine the appropriate smoothing kernel using a voxel-wise comparison, makes the method difficult to extend to whole body data.
The exclusion of patients with diabetes mellitus constitutes a major limitation, particularly making the outcome difficult to generalize to whole population with SMI.
Many experimental methods, such as gel-shift assays and promoter mutation analysis, can be used to identify transcription factor binding sites (TFBSs), but these low-throughput methods are time-consuming and thus difficult to apply to whole genomes.
