A system, method and apparatus for executing a bioinformatics analysis on genetic sequence data includes an integrated circuit formed of a set of hardwired digital logic circuits that are interconnected by physical electrical interconnects. One of the physical electrical interconnects forms an input to the integrated circuit that may be connected with an electronic data source for receiving reads of genomic data. The hardwired digital logic circuits may be arranged as a set of processing engines, each processing engine being formed of a subset of the hardwired digital logic circuits to perform one or more steps in the bioinformatics analysis on the reads of genomic data. Each subset of the hardwired digital logic circuits may be formed in a wired configuration to perform the one or more steps in the bioinformatics analysis.

A solar oven designed for year-round use is readily-accessible and easy to use by simply removing a protective oven cover. The solar oven replicates the mainstream cook's current pattern with standard stoves, requiring little set-up or storage. Access to the solar oven is from the front and solar heat is stored in an upper oven chamber. By changing the solar oven chamber above the door, heat remains in the trapezoidal-pyramid cover during transfers and condensation is reduced to a minimum. By raising and lowering the floor, the solar oven allows the gasketed oven chamber to perform food cooking while being protected to prevent loss of heat. The solar oven remains available in all weather, does not fade in color and is attractive to most mainstream cooks.

A computer implemented system for genomic data sorting, comprising alignment and position mapping. The system maps each read to a position on the reference genome with which the read is associated, followed by sorting these reads by their mapped positions.

The invention relates to a method of determining an infection of a patient with Klebsiella species potentially resistant to antimicrobial drug treatment by detecting mutations in the genes, parC, KPN 01607, gyrA, KPN 02451, baeR, aceF, ybgH, ynjE, KPN 01951, KPN 01961, KPN 02114, mhpA, KPN 02128, KPN 02144, KPN 02149, ydiJ, btuE, oppC, pth, KPN 02298, KPN 02302, dadA, yoaA, ftn, cbl, hisB, yegQ, yehY, KPN 02580, yejH, KPN 02621, yfaW, KPN 02170, KPN 02025, livG, livM, livH, fliY, yedQ, abgB, treA, baeS, KPN 02399, ydcR, anmK, ccmF, KPN 02440, KPN 02540, KPN 01752, and KPN 04195, and/or KOX 26125, KOX 13365, KOX 16735, KOX 25695, KOX 12270, and KOX 15055; a method of selecting a treatment of a patient suffering from an antibiotic resistant Klebsiella infection; and a method of determining an antibiotic resistance profile for bacterial microorganisms of Klebsiella species, as well as computer program products used in these methods. In an exemplary method, a sample is used for molecular testing and then a molecular fingerprint is taken. The result is then compared to a reference library and the result is reported.

Disclosed in some examples are methods including selecting a first plurality of single gene mutants from a pool of possible single gene mutants of an organism. The first plurality of single gene mutants is less than a number of possible single mutants. A computer processor is used to iteratively select a second plurality of single gene mutants by selecting single gene mutants from the pool of possible single gene mutants that increases a sum of products of similarities between the first plurality of single gene mutants and corresponding functional relationships. The second plurality of single gene mutants is larger in number than the first plurality of single gene mutants, and wherein the second plurality of single gene mutants is less than the number of possible single gene mutants of the organism. A set of genes is outputted comprising the first and second pluralities of single gene mutants.

This disclosure presents a model for identifying correlations in genome-wide association studies (GWAS) with function-valued traits that provides increased power and computational efficiency by use of a Gaussian process regression with radial basis function (RBF) kernels to model the function-valued traits and specialized factorizations to achieve speed. A Gaussian Process is assigned to each partition for each allele of a given single nucleotide polymorphism (SNP) which yields flexible alternative models and handles a large number of data points in a way that is statistically and computationally efficient. This model provides techniques for handling missing and unaligned function values such as would occur when not all individuals are measured at the same time points. If the data is complete algebraic re-factorization by decomposition into Kronecker products reduces the time complexity of this model thereby increasing processing speed and reducing memory usage as compared to a naive implementation.

Provided are systems and methods for rational selection of context sequences and sequence templates including a computer implemented method for obtaining a repository of attributes sets where the attributes sets are statistically associated with a sequence template representing two or more context sequences.

A circuit and a calibrating method are provided. A pixel sensor senses a terminal voltage of a driving transistor during a sensing period. A calibration sensor senses a first predetermined voltage and a second predetermined voltage during a calibration period. An amplifying circuit amplifies the terminal voltage according to a gain, and amplifies the first predetermined voltage and the second predetermined voltage according to the gain. An analog to digital converter converts the amplified terminal voltage into a digital code, and converts the amplified first predetermined voltage into a first digital code and converts the amplified second predetermined voltage into a second digital code. A gain adjusting circuit adjusts the gain according to the first digital code and the second digital code. Accordingly, the gain of the amplifying circuit is calibrated.

Rapid nucleic acid libraries, methods of generation, kits, and compositions relating to library synthesis, including reagents, intermediaries and final products are disclosed herein. The disclosure enables rapid synthesis of libraries that allow independent verification of sequence information and rapid identification of sequence information with template of origin.

The disclosed embodiments concern methods, apparatus, systems and computer program products for determining the presence or absence of repeat expansions of interest, including repeat expansions of repeat sequences that are medically significant. Some embodiments provide methods for identifying and calling medically relevant repeat expansions using anchored reads. An anchored read is a paired end read that is unaligned to a repeat sequence under consideration, but it is paired with an anchor read that is aligned to or near the repeat sequence. Some embodiments use both anchor and anchored reads to determine the presence or absence of the repeat expansions. System, apparatus, and computer program products are also provided for determining repeat expansion implementing the methods disclosed.