dorsal/arxiv
View SchemaIsochores Merit the Prefix 'Iso'
| Authors | Wentian Li, Pedro Bernaola-Galvan, Pedro Carpena, Jose L Oliver |
|---|---|
| Categories | |
| ArXiv ID | physics/0209080 |
| URL | https://arxiv.org/abs/physics/0209080 |
| DOI | 10.1016/S1476-9271(02)00090-7 |
| Journal | Computational Biology and Chemistry, 27(1):5-10 (2003) |
Abstract
The isochore concept in human genome sequence was challenged in an analysis by the International Human Genome Sequencing Consortium (IHGSC). We argue here that a statement in IGHSC analysis concerning the existence of isochore is incorrect, because it had applied an inappropriate statistical test. To test the existence of isochores should be equivalent to a test of homogeneity of windowed GC%. The statistical test applied in the IHGSC's analysis, the binomial test, is however a test of a sequence being random on the base level. For testing the existence of isochore, or homogeneity in GC%, we propose to use another statistical test: the analysis of variance (ANOVA). It can be shown that DNA sequences that are rejected by binomial test may not be rejected by the ANOVA test.
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"abstract": "The isochore concept in human genome sequence was challenged in an analysis\nby the International Human Genome Sequencing Consortium (IHGSC). We argue here\nthat a statement in IGHSC analysis concerning the existence of isochore is\nincorrect, because it had applied an inappropriate statistical test. To test\nthe existence of isochores should be equivalent to a test of homogeneity of\nwindowed GC%. The statistical test applied in the IHGSC\u0027s analysis, the\nbinomial test, is however a test of a sequence being random on the base level.\nFor testing the existence of isochore, or homogeneity in GC%, we propose to use\nanother statistical test: the analysis of variance (ANOVA). It can be shown\nthat DNA sequences that are rejected by binomial test may not be rejected by\nthe ANOVA test.",
"arxiv_id": "physics/0209080",
"authors": [
"Wentian Li",
"Pedro Bernaola-Galvan",
"Pedro Carpena",
"Jose L Oliver"
],
"categories": [
"physics.bio-ph",
"physics.data-an",
"q-bio.GN"
],
"doi": "10.1016/S1476-9271(02)00090-7",
"journal_ref": "Computational Biology and Chemistry, 27(1):5-10 (2003)",
"title": "Isochores Merit the Prefix \u0027Iso\u0027",
"url": "https://arxiv.org/abs/physics/0209080"
},
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