PATENT CLAIM ANALYSIS

Application Number: 16201689
Application Type: Utility
Filing Date: 2018-11
Publication Date: 2019-06
Patent Classification: ["436", "518000"]

Abstract:
Methods, compositions, and reaction mixtures are provided for identifying a T cell receptor (TCR) and an epitope peptide that specifically binds the TCR. Methods, compositions, and reaction mixtures are also provided for identifying a plurality of T cell receptors and corresponding epitope peptides that specifically bind the T cell receptors. In some cases, the plurality of T cell receptors and corresponding epitope peptides can be identified in a highly parallel manner.

Claim (Index 1):
A method for identifying a T cell receptor (TCR) and an epitope peptide that specifically binds the TCR, the method comprising:\n a) providing a plurality of mixture partitions comprising a population of T cells, the T cells comprising a plurality of different TCRs having a TCR heavy chain encoded by a TCR heavy chain nucleic acid and a TCR light chain encoded by a TCR light chain nucleic acid, wherein individual mixture partitions of the plurality of mixture partitions comprise:\n i) a portion of the population of T cells, wherein the portion of T cells comprises one or more TCRs that specifically bind to a portion of a plurality of epitope peptides present in the mixture partition; \n ii) a plurality of partition-specific barcodes; and \n iii) a plurality of epitope nucleic acids encoding the epitope peptides; \n b) in the plurality of mixture partitions, generating barcoded nucleic acids by attaching the partition-specific barcodes to the TCR heavy chain, TCR light chain, and epitope nucleic acids; c) pooling the barcoded nucleic acids to form a pooled mixture; and d) sequencing the barcoded nucleic acids in the pooled mixture and thereby identifying the sequence of the heavy and light chain of the TCR that specifically binds the epitope peptide and the sequence of the epitope peptide that specifically binds the TCR by identifying heavy and light chain nucleic acids and epitope nucleic acids having matching partition-specific barcodes. e) determining a partition segregation pattern for a plurality of TCR heavy chains, TCR light chains, and epitope peptides by identifying TCR heavy chain nucleic acids that have identical protein coding sequences but different partition-specific barcodes, TCR light chain nucleic acids that have identical protein coding sequences but different partition-specific barcodes, and epitope nucleic acids that have identical protein coding sequences but different partition-specific barcodes; f) determining from the partition segregation pattern, the number of partitions in which a TCR heavy chain, a TCR light chain, and an epitope nucleic acids co-segregate; g) applying Formula 1 to determine the probability (P) that the number of partitions in step f) has occurred by random chance; h) classifying the TCR heavy chain, the TCR light chain, and the epitope nucleic acids as encoding a TCR and epitope peptide that specifically bind to each other if probability (P) falls below a preset threshold.

Metadata:
- Claim Count in Document: 3.0
- Percentile: 98.0
- Lexical Diversity: 1.92857
- Patent Class: 436.0
- Transitional Phrase Type: open
- Component Type: 1
- Foreign Priority: False
- Related Applications: ['15216527', '15460654', '14560314', '12373362', '12731485']

Analysis Scores:
- 35 USC 101 Eligibility (BERT): 0.6233298189837684
- 35 USC 102 Novelty (BERT): 0.5678585848383728
- Combined Prediction Score: 0.6177826955692289
- Mean Citation Score: 273.80424600000003
- Max Citation Score: 452.69705
- Similarity Product: 440.6053077869087

Labels:
- Claim Label 101: 1
- Claim Label 102: 1
- Claim Label 103: 1
- Claim Label 112: 0
- Combined Label: 1
- Label 101 Adjusted: 1

Dataset: test