PMID- 20542915
OWN - NLM
STAT- MEDLINE
DCOM- 20100927
LR  - 20211020
IS  - 1362-4962 (Electronic)
IS  - 0305-1048 (Print)
IS  - 0305-1048 (Linking)
VI  - 38
IP  - Web Server issue
DP  - 2010 Jul
TI  - ICM Web: the interactive chromatin modeling web server.
PG  - W254-61
LID - 10.1093/nar/gkq496 [doi]
AB  - The interactive chromatin modeling web server (ICM Web) is an interactive tool 
      that allows users to rapidly assess nucleosome stability and fold sequences of 
      DNA into putative chromatin templates. ICM Web takes a sequence composed of As, 
      Cs, Gs, and Ts as input and generates (i) a nucleosome energy level diagram, (ii) 
      coarse-grained representations of free DNA and chromatin and (iii) plots of the 
      helical parameters (Tilt, Roll, Twist, Shift, Slide and Rise) as a function of 
      position. The user can select from several different energy models, nucleosome 
      structures and methods for placing nucleosomes in the energy landscape. 
      Alternatively, if nucleosome footprints are known from experiment, ICM Web can 
      use these positions to create a nucleosome array. The default energy model 
      achieves a correlation coefficient of 0.7 with 100 experimentally determined 
      values of stability and properly predicts the location of six positioned 
      nucleosomes in the mouse mammary tumor virus (MMTV) promoter. ICM Web is suitable 
      for interactively investigating nucleosome stability and chromatin folding for 
      sequences up to tens of kilobases in length. No login is required to use ICM Web.
FAU - Stolz, Richard C
AU  - Stolz RC
AD  - Department of Biostatistics, Tulane University, 1440 Canal Street, Suite 2001, 
      New Orleans, LA 70112, USA.
FAU - Bishop, Thomas C
AU  - Bishop TC
LA  - eng
GR  - R01GM076356/GM/NIGMS NIH HHS/United States
PT  - Journal Article
PT  - Research Support, N.I.H., Extramural
DEP - 20100611
PL  - England
TA  - Nucleic Acids Res
JT  - Nucleic acids research
JID - 0411011
RN  - 0 (Chromatin)
RN  - 0 (Nucleosomes)
RN  - 9007-49-2 (DNA)
SB  - IM
MH  - Chromatin/chemistry
MH  - *Chromatin Assembly and Disassembly
MH  - DNA/chemistry
MH  - Internet
MH  - Mammary Tumor Virus, Mouse/genetics
MH  - Nucleic Acid Conformation
MH  - Nucleosomes/*chemistry
MH  - Promoter Regions, Genetic
MH  - *Software
MH  - User-Computer Interface
PMC - PMC2896153
EDAT- 2010/06/15 06:00
MHDA- 2010/09/29 06:00
PMCR- 2010/06/11
CRDT- 2010/06/15 06:00
PHST- 2010/06/15 06:00 [entrez]
PHST- 2010/06/15 06:00 [pubmed]
PHST- 2010/09/29 06:00 [medline]
PHST- 2010/06/11 00:00 [pmc-release]
AID - gkq496 [pii]
AID - 10.1093/nar/gkq496 [doi]
PST - ppublish
SO  - Nucleic Acids Res. 2010 Jul;38(Web Server issue):W254-61. doi: 
      10.1093/nar/gkq496. Epub 2010 Jun 11.