Massachusetts Institute of Technology

Harvard College

University of Massachusetts

Whitehead Institute for Biomedical Research

The Broad Institute, Inc.

Alexandre Melnikov

Andreas Gnirke

Eric Lander

Job Dekker

Georgia Giannoukos

Louise Williams

Nynke Van Berkum

Chad Nusbaum

Erez Lieberman Aiden

Tarjei Mikkelsen

Erez Lieberman

Eric S Lander

Li Wang

Xiaolan Zhang

The disclosed Hi-C protocol can identify genomic loci that are spatially co-located in vivo. These spatial co-locations may include, but are not limited to, intrachromosomal interactions and/or interchromosomal interactions. Hi-C techniques may be applied to many different scales of interest. For example, on a large scale, Hi-C techniques can be used to identify long-range interactions between distant genomic loci.

HiC: method of identifying regulatory interactions between genomic loci

The invention provides methods for determining the activity of a plurality of nucleic acid regulatory elements. These methods may facilitate, e.g., the systematic reverse engineering, and optimization of mammalian cis-regulatory elements at high resolution and at a large scale. The method may include integration of multiplexed DNA synthesis and sequencing technologies to generate and quantify the transcriptional regulatory activity of e.g., thousands of arbitrary DNA sequences in parallel in cell-based as says (e.g., mammalian cell based assays).

Multiplexed genetic reporter assays and compositions

The invention provides methods for generating pools of variants of DNA templates, and methods of using pools of variants to identify sequences involved in conferring sensitivity or resistance to environmental factors.

Methods for generating pools of variants of a DNA template

HiC: method of identifying interactions between genomic loci

Methods of identifying interactions between genomic loci

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Bellingham, MA, United States of America

Alexandre Melnikov