Posts Tagged ‘hic’
Untangling the Formation of DNA Loops – Scientific American
Wednesday, April 3rd, 2019SCIENTIFIC AMERICAN MARCH 2019
Untangling the Formation of DNA Loops
New discoveries on ancient loops in DNA offer clues into gene regulation
By Erez Lieberman Aiden
https://www.scientificamerican.com/article/untangling-the-formation-of-dna-loops/
differential Hi-C analysis
Wednesday, July 11th, 2018https://genome.cshlp.org/content/28/3/412.long
It is kind of a similar idea about finding the differential chromatin interactions
Comparative analysis of three-dimensional chromosomal architecture identifies a novel fetal hemoglobin regulatory element. – PubMed – NCBI
Tuesday, October 31st, 2017Comparative…3D chromosomal architecture identifies a novel fetal Hb reg. element http://GenesDev.cshlp.org/content/31/16/1704.abstract #Pseudogene shifts v. promotor
PETModule: a motif module based approach for enhancer target gene prediction : Scientific Reports
Saturday, September 17th, 2016PETModule…enhancer-target-gene prediction
http://www.nature.com/articles/srep30043 Compares activity
correlations against a Hi-C/ChIA-PET gold std.
Spatial confinement is a major determinant of the folding landscape of human chromosomes
Thursday, July 28th, 2016Gamze Gursoy, Yun Xu, Amy Kenter and Jie Liang. “Spatial confinement is a major determinant of folding landscape of human genome”, Nucleic Acids Research, 2014, 42 (13), 8223-8230
Confinement is a major determinant of the #folding…of chromosomes http://NAR.oxfordjournals.org/content/42/13/8223.full Simulations of self-avoiding chain growth
hi-C for 9 cell types
Tuesday, December 16th, 2014A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of #Chromatin Looping
http://www.cell.com/cell/abstract/S0092-8674(14)01497-4 HiC data for 9 celltypes
A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping
Suhas S.P. Rao
,Miriam H. Huntley
Neva C. Durand
Elena K. Stamenova
Ivan D. Bochkov
James T. Robinson
Adrian L. Sanborn
Ido Machol
Arina D. Omer
Eric S. Lander
Erez Lieberman Aiden
DOI: http://dx.doi.org/10.1016/j.cell.2014.11.021
http://www.cell.com/cell/abstract/S0092-8674(14)01497-4
hi-C for 9 cell types
Sunday, December 14th, 2014A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping
Suhas S.P. Rao
,Miriam H. Huntley
Neva C. Durand
Elena K. Stamenova
Ivan D. Bochkov
James T. Robinson
Adrian L. Sanborn
Ido Machol
Arina D. Omer
Eric S. Lander
Erez Lieberman Aiden
DOI: http://dx.doi.org/10.1016/j.cell.2014.11.021
http://www.cell.com/cell/abstract/S0092-8674(14)01497-4
Large-scale reconstruction of 3D structures of human chromosomes from chromosomal contact data
Saturday, July 19th, 2014Large-scale reconstruction of 3D structures of human chromosomes from chromosomal contact data
http://nar.oxfordjournals.org/content/early/2014/01/24/nar.gkt1411.full