Methods of monitoring conditions by sequence analysis

摘要

There is a need for improved methods for determining the diagnosis and prognosis of patients with conditions, including autoimmune disease and cancer. Provided herein are methods for using DNA sequencing to identify personalized biomarkers in patients with autoimmune disease and other conditions. Identified biomarkers can be used to determine the disease state for a subject with an autoimmune disease or other condition.

主权项

1. A method for monitoring an autoimmune disease, an infections disease or a cancer of an individual comprising:
(a) obtaining a sample from the individual comprising T-cells and/or B-cells; (b) amplifying molecules of nucleic acid from said cells of the sample, the molecules of nucleic acid comprising sequences of complementarily determining region 3 (CDR3) from T-cell receptor genes or immunoglobulin genes; (c) spatially isolating individual molecules of the amplified nucleic acids; (d) sequencing the spatially isolated individual molecules of the amplified nucleic acids to provide a full repertoire of CDR3 sequences comprising at least 1000 sequence reads of at least 30 bp; and (e) monitoring the autoimmune disease, infectious disease or cancer by determining levels of one or more CDR3 sequences that correlate with the disease or cancer.