Skip to main content

Table 5 Experimental evaluation

From: Assignment of isochores for all completely sequenced vertebrate genomes using a consensus

     Method meets criteria
Evaluation criteria Experimental evidence References IsoF GC-P BASIO L-S Consensus
1. Isochore border between the genes MN1 (in the GC rich region) and PITPNB (in the GC poor region) in the human genome Replication time during the S phase of the cell cycle [30] Yes Yes Yes No Yes
   Early MN1 gene, late PITPNB gene       
   Pause of about 3 hours at isochore border       
2. Isochore border within the KIAA1043 gene in the human genome Replication time during the S phase of the cell cycle [30] Yes No Yes No Yes
   Long pause at isochore border       
3. Isochore border between the MHC classes II and class III regions Replication time during the S phase of the cell cycle [17] Yes Yes Yes Yes Yes
   Long pause at isochore border       
4. Typical isochore length and isochore length distribution subject to isochore GC content Ultra-centrifugation in combination with fragmentations at different scales. See also theoretical discussions in Constantini et al. [2, 3, 18] No Partly No Partly Yes
  1. IsoF, IsoFinder; GC-P, GC-Profile; L-S, least-squares.