Abstract: Systems and methods for identifying neoantigen peptide candidates are described. Such systems and methods can be used to generate engineered immune cells that target neoantigen peptides. In certain embodiments, the systems and methods do not require in silico epitope binding prediction algorithms. In certain embodiments, neoantigens are identified for a cancer or tumor with a low mutational burden.

Abstract: A fraud detection system preemptively identifies and mitigates fraudulent financial transactions in real-time across a diverse range of digital and physical transaction sources. Transaction data may be acquired from various platforms and categorized into rule sets specific to transaction types. Categorized data is aligned with existing risk profiles to construct a dynamic hysteresis model. This model, evaluated by a decision tree algorithm, identifies potential fraud by integrating immediate transaction details with a comprehensive historical data analysis, thus enabling advanced trend analysis and pattern recognition. Key features identified by the decision tree are used to form a heuristics model, which is then analyzed by a transformer network risk model. A feedback loop enhances the system's effectiveness by incorporating decision outcomes back into the model training server, thus refining the training dataset and continuously improving the accuracy of the risk model.

Abstract: The present invention includes a method of detecting and treating a patient suspected of having Barrett's esophagus comprising: obtaining a biological sample from an esophagus of the patient; determining a microbiome in the biological sample by detecting the presence of bacteria by plasmid dilution verification or quantitative polymerase chain reaction (qPCR); wherein if the patient has a microbiome indicative of an increased risk of esophageal cancer threating the patient with at least one of: removing at least part of the esophagus, esophagectomy probiotic therapy, or chemically targeting elimination of bacteria indicative of an increased risk of esophageal cancer.

Abstract: Systems and methods for identifying neoantigen peptide candidates are described. Such systems and methods can be used to generate engineered immune cells that target neoantigen peptides. In certain embodiments, the systems and methods do not require in silico epitope binding prediction algorithms. In certain embodiments, neoantigens are identified for a cancer or tumor with a low mutational burden.

Abstract: The present invention includes engineered T cell receptor (TCR) proteins, nucleic acids, vectors, host cells, methods of treating cancer, and chimeric antigen receptor expressing T cell (CAR-T) comprising an alpha chain CDR3 having the amino acid sequence of SEQ ID NO: 1, 3, 5, 7, 9, 11, 13, 15, 17, 19, 21, or 23 and/or a beta chain CDR3 having the amino acid sequence of SEQ ID NO: 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22, or 24, wherein the TCR is specific for a KRAS G12>V mutation peptide, antigen-MHC binding portions, and full length portions of the same.

Abstract: A method of determining the risk that a subject will develop urinary stone disease (USD) or hyperoxaluria is described. The method includes conducting a differential abundance analysis of the bacteria present in a stool and/or urine sample obtained from the subject, determining the ratio of bacteria associated with health to bacteria associated with USD or hyperoxaluria present in the subject’s stool and/or urine sample, and assigning a level of risk for developing USD or hyperoxaluria based on the ratio.

Abstract: The present invention relates to methods for editing the genome of a microbial host cell in successive rounds of transformation. The method allows the introduction of genetic edits into the genome of a microbial host cell in an iterative fashion that does not require the use of functional counterselection following at least one round of transformation. It can be used to rapidly stack genetic edits in the genome of a microbial host cell. Kits for performing the methods are also disclosed.

Abstract: The present disclosure describes the engineering of microbial cells for fermentative production of 1,5-diaminopentane and provides novel engineered microbial cells and cultures, as well as related 1,5-diaminopentane production methods.

Abstract: The present invention includes a method of detecting and treating a patient suspected of having Barrett's esophagus comprising: obtaining a biological sample from an esophagus of the patient; determining a microbiome in the biological sample by detecting the presence of bacteria by plasmid dilution verification or quantitative polymerase chain reaction (qPCR); wherein if the patient has a microbiome indicative of an increased risk of esophageal cancer threating the patient with at least one of: removing at least part of the esophagus, esophagectomy probiotic therapy, or chemically targeting elimination of bacteria indicative of an increased risk of esophageal cancer.

Abstract: Apparatus and methods for processing a substrate including an injector unit insert with a plurality of flow paths leading to a first plenum, each of the flow paths providing one or more of substantially the same residence time, length and/or conductance. Injector units including the injector unit inserts have increased flow uniformity.

Abstract: A thermal and environmental noise suppressing interface circuit which is configured to operate cold and is configured to perform biasing with suppression of noise currents from room temperature noise voltages and dc coupled rf readout of a superconducting device under test with a single coaxial cable or equivalent conductor pair. The circuit is configured to suppress the propagation of thermal and environmental noises to/from sensors operating at a different temperature from its operating and control equipment while maintaining a single input-output channel, and provides for the placement of a local grounding impedance on an intercept board.

Abstract: The present disclosure relates to methods of joining three or more double-stranded (ds) or single-stranded (ss) DNA molecules of interest in vitro or in vivo. The method allows the joining of a large number of DNA fragments, in a deterministic fashion. It can be used to rapidly generate nucleic acid libraries that can be subsequently used in a variety of applications that include, for example, genome editing and pathway assembly. Kits for performing the method are also disclosed.

Abstract: Methods, compositions, and kits for high throughput DNA assembly reactions in vitro. Modular CRISPR DNA constructs comprising modular insert DNA parts flanked by cloning tag segments comprising pre-validated CRISPR protospacer/protospacer adjacent motif sequence combinations. High throughput methods of CRISPRi and CRISPRa.

Abstract: The present invention relates to methods for editing the genome of a microbial host cell in successive rounds of transformation. The method allows the introduction of genetic edits into the genome of a microbial host cell in an iterative fashion that does not require the use of functional counterselection following at least one round of transformation. It can be used to rapidly stack genetic edits in the genome of a microbial host cell. Kits for performing the methods are also disclosed.

Abstract: The present invention relates to methods for editing the genome of a microbial host cell in one or more rounds of transformation. The method allows the introduction of genetic edits into the genome of a microbial host cell in a pooled and/or iterative fashion that does not require the use of functional counterselection following at least one round of transformation. It can be used to rapidly stack genetic edits in the genome of a microbial host cell. Compositions and kits for performing the methods are also disclosed.

Abstract: The present disclosure relates to methods of joining three or more double-stranded (ds) or single-stranded (ss) DNA molecules of interest in vitro or in vivo. The method allows the joining of a large number of DNA fragments, in a deterministic fashion. It can be used to rapidly generate nucleic acid libraries that can be subsequently used in a variety of applications that include, for example, genome editing and pathway assembly. Kits for performing the method are also disclosed.

Abstract: Embodiments disclosed herein describe a liner assembly including a plurality of individually separated gas passages. The liner assembly provides control of flow parameters, such as velocity, density, direction and spatial location, across a substrate being processed. The processing gas across the substrate being processed may be specially tailored for individual processes with a liner assembly according to the present embodiments.