New England Biolabs, Inc.

Pierre O Esteve

Sriharsa Pradhan

Hang-Gyeong Chin

Chaithanya Ponnaluri

Shuang-Yong Xu

George R Feehery

Vishnu Udayakumaran Nair Sunitha Kumary

Guoqiang Zhang

Julie Beaulieu

Hang Gyeong Chin

Provided herein, among other things, are various compositions and methods for analyzing chromatin. In some embodiments, the composition may comprise a mixture of a nicking enzyme, four dNTPs, at least one labeled dNTP and, optionally, a polymerase. In some embodiments, this method may comprise: obtaining a sample comprising chromatin, reacting the sample with the composition to selectively label the open chromatin in the sample, and analyzing the labeled sample.

Analysis of chromatin using a nicking enzyme

Compositions, methods and kits are provided for identifying the presence and location of a target in chromosomal DNA. A nicking endonuclease fused to a binding domain that binds to a constant region of an antibody (NEFP) is provided that may be used for binding to a target directly or via an antibody that binds to the target. The target may be a protein or structural feature of the DNA and its presence and location may correspond to a phenotype and/or pathology in a biopsy or other cell sample for diagnostic purposes. The background is reduced by the addition of a glycoaminoglycan (GAG) that reversibly inhibits binding of the NEFP to DNA. Nick translation in the presence of a strand displacing polymerase enables the incorporation of tagged nucleotides that (i) blocks re-nicking; (ii) facilitates immobilization of DNA fragments around the target for sequencing; and/or (iii) enables dye labelling of the chromosomal DNA within the cell nuclei for analysis by microscopy.

Compositions and methods for detecting molecular targets on chromosomal DNA

RNA molecules inhibiting a DNMT and methods and compositions incorporating or generating the RNA molecules are described.

DNMT inhibitors

Growing community of inventors

Ipswich, MA, United States of America

Pierre O Esteve