Abstract: Systems and methods including a framework for migration of live data. The method may comprised, by one or more hardware processors executing program instructions, receiving, at a migration proxy of the framework, code for reading data and writing data compatible with each of a plurality of states of a migration of data in a data store, wherein a service is at least intermittently reading data from and writing data to the data store; determining, by a migration runner of the framework, to perform the migration of the data; initiating, by the migration runner, the migration of the data, wherein the migration comprises a plurality of stages; storing, as the migration progresses through the plurality of stages, and at a migration data store of the framework, a current stage of the migration; and during the migration, using the migration proxy to read data from and write data to the data store.

Abstract: Integrated circuits and integrated circuit dies include TSVs laid out in symmetrical patterns. Because of the symmetrical arrangement of the TSVs and associated routing patterns, an integrated circuit is able to support operation of multiple similar dies that are placed in different positions in the integrated circuit. This in turn simplifies the design and production of the multiple similar dies, thus reducing development and manufacturing costs for the corresponding integrated circuits.

Abstract: Systems and methods for publication and external interfacing for a unified document surface are disclosed. An example system may include a document serving circuit structured to access a document data, the document data including data for a unified document surface, and to provide at least a portion of the document data to a client serving circuit; the client serving circuit structured to implement a unified document surface interface in response to the at least a portion of the document data; the client serving circuit further structured to implement an extension creation interface, and to provide a pack implementation value to the document serving circuit in response to user interactions with the extension creation interface; and wherein the document serving circuit is further structured to determine a pack definition value in response to the pack implementation value.

Abstract: Methods and systems for sample contamination detection are disclosed. In particular, sample barcodes are utilized, wherein each sample barcode is assigned to a sample and ligated to fragments from the sample. The sample barcodes are used in conjunction with indices from sequencing libraries to accurately assign sequence reads to samples during multiplex sequencing. Molecule identifiers may also be utilized to aid in de-duping of sequence reads to precisely identify original NA fragments from a sample. Accordingly, in one or more embodiments, a sequencing method includes isolating DNA fragments in a sample, ligating the DNA fragments with unique molecule identifiers (UMIs), performing an amplification process resulting in amplicons, ligating a sample barcode onto the amplicons, and performing amplicon sequencing. The analytics system looks to whether indices are matched and whether a sample barcode matches to the pair of indices when identifying single-index or double-index hopping events.

Abstract: Embodiments disclosed herein include a semiconductor device and methods of forming such a device. In an embodiment, the semiconductor device comprises a substrate and a transistor on the substrate. In an embodiment, the transistor comprises a first gate electrode, where the first gate electrode is part of a first array of gate electrodes with a first pitch. In an embodiment, the first gate electrode has a first average grain size. In an embodiment, the semiconductor device further comprises a component cell on the substrate. In an embodiment, the component cell comprises a second gate electrode, where the second gate electrode is part of a second array of gate electrodes with a second pitch that is larger than the first pitch. In an embodiment, the second gate electrode has a second average grain size that is larger than the first average grain size.

Abstract: The invention described herein provides for methods and systems for determining, selecting, and/or treating diseases and conditions caused by or associated with high quantities of methanogens in a subject, or diseases and conditions caused by or associated with low quantities of methanogens in a subject. In various embodiments, a therapy to inhibit the growth of methanogens or to promote the growth of methanogens are selected and/or administered to a subject in need thereof.

Abstract: A footwear assembly can comprise, an upper, a lace cable, a plurality of lace guides and a tensioner. The tensioner can comprise an elastic member extending between two lace guides of the plurality of lace guides, an elastic member extending between first and second portions of the upper, an elastic member extending between a portion of the upper and a lace guide of the plurality of lace guides, a heel channel connected to a heel portion of the upper and configured to facilitate access to an interior space, an elastic member coupled to the footwear assembly that functions to smooth out a torque versus lace displacement curve during tightening of the lace cable.

Abstract: Systems and methods including a framework for migration of live data. The method may comprised, by one or more hardware processors executing program instructions, receiving, at a migration proxy of the framework, code for reading data and writing data compatible with each of a plurality of states of a migration of data in a data store, wherein a service is at least intermittently reading data from and writing data to the data store; determining, by a migration runner of the framework, to perform the migration of the data; initiating, by the migration runner, the migration of the data, wherein the migration comprises a plurality of stages; storing, as the migration progresses through the plurality of stages, and at a migration data store of the framework, a current stage of the migration; and during the migration, using the migration proxy to read data from and write data to the data store.

Abstract: Techniques for persisting user data across secure shell instances are provided. A method includes receiving a first request from a session manager service to establish a connection to a secure shell instance and restore a user block volume with corresponding backup user data. The method may include reserving an empty block volume. The method may also include transmitting a backup data identifier associated with the corresponding backup user data to a backup service and receiving the corresponding backup user data from the backup service. The method may further include providing the corresponding backup user data to the empty block volume to create a restore volume and transmitting a restore volume identifier corresponding to a data center identifier to the session manager service. The method may include receiving a second request to attach the restore volume to a reserved instance, the second request being received from the session manager service.

Abstract: Described herein are methods and systems for detecting and/or distinguishing irritable bowel syndrome (IBS) from inflammatory bowel disease (IBD) and celiac disease. The methods and systems can utilize the detection of anti-CdtB antibodies and/or anti-vinculin antibodies to detect IBS, distinguish IBS from IBD and/or celiac disease. Further described are methods for selecting a therapy to treat IBS, IBD or celiac disease.

Abstract: A mouth insert for treating nosebleeds includes a main body and a bite tab. The bite tab removably engages the main body and is configured to move up and/or down vertically in order to adjust the height of the device. The main body includes a horizontally extending elongated portion, a center portion extending downward from a bottom surface of the elongated portion, and the center portion has a narrower width than the horizontally extending elongated portion. The elongated portion of the main body is shaped and dimensioned to be inserted into a buccal cavity of a user's mouth and to fit behind the user's upper lip and in front of the user's upper gums, and the center portion is shaped and dimensioned to be positioned only in front of the user's upper front teeth.

Abstract: In comparison to conventional sequencing pileup algorithms, the process described herein generates sequencing pileups that contains additional information not typically reported by conventional algorithms while also consuming fewer computational resources (e.g., time, processing power, and memory). First, each of a FASTA reference genome and BAM sequence read files are converted to an internal representation. This enables the rapid iteration across nucleotide bases of the sequence reads to determine support characteristics that summarize information of nucleic acid molecules corresponding to positions across the reference genome. Next, the support characteristics of positions across the reference genome are stored through a memory allocation process that utilizes a first and a second temporary storage. This enables the convenient freeing of one temporary storage while the other temporary storage is being used.

Abstract: Methods and systems for detecting contaminated fragments in a biological sample for cancer classification are disclosed. The system identifies CpG-SNP contamination markers. The CpG-SNP contamination markers include at least one SNP that affects a CpG site. The CpG-SNP contamination markers may include additive CpG-SNP sites and/or subtractive CpG-SNP sites. Additive CpG-SNP sites include an SNP that creates a new CpG site. Subtractive CpG-SNP sites include an SNP that removes a preexisting CpG site. Hybrid sites may include additional sites. A multiple CpG-SNP contamination marker comprises two or more CpG-SNP sites. A CpG-SNP & indel contamination marker comprises at least one CpG-SNP site and an indel site. For a given sample, the system identifies contamination markers for which the sample is homozygous. The system determines fragments having a haplotype that is different from the homozygous haplotype of the sample to be contamination fragments.

Abstract: Described herein are methods and systems for detecting and/or distinguishing irritable bowel syndrome (IBS) from inflammatory bowel disease (IBD) and celiac disease. The methods and systems can utilize the detection of anti-CdtB antibodies and/or anti-vinculin antibodies to detect IBS, distinguish IBS from IBD and/or celiac disease. Further described are methods for selecting a therapy to treat IBS, IBD or celiac disease.

Abstract: The invention described herein provides for methods and systems for determining, selecting, and/or treating diseases and conditions caused by or associated with high quantities of methanogens in a subject, or diseases and conditions caused by or associated with low quantities of methanogens in a subject. In various embodiments, a therapy to inhibit the growth of methanogens or to promote the growth of methanogens are selected and/or administered to a subject in need thereof.

Abstract: A mouth insert for treating nosebleeds includes a main body and a bite tab. The bite tab removably engages the main body and is configured to move up and/or down vertically in order to adjust the height of the device. The main body includes a horizontally extending elongated portion, a center portion extending downward from a bottom surface of the elongated portion, and the center portion has a narrower width than the horizontally extending elongated portion. The elongated portion of the main body is shaped and dimensioned to be inserted into a buccal cavity of a user's mouth and to fit behind the user's upper lip and in front of the user's upper gums, and the center portion is shaped and dimensioned to be positioned only in front of the user's upper front teeth.

Abstract: The invention described herein provides for methods and systems for determining, selecting, and/or treating diseases and conditions caused by or associated with high quantities of methanogens in a subject, or diseases and conditions caused by or associated with low quantities of methanogens in a subject. In various embodiments, a therapy to inhibit the growth of methanogens or to promote the growth of methanogens are selected and/or administered to a subject in need thereof.

Abstract: An allelic position variant calling method using a prior genotype probability at the allelic position is provided. A strand specific base count set in forward and reverse directions for the allelic position is obtained, using strand orientation and identity of a respective base at the allelic position in each respective nucleic acid fragment sequence that maps to the allelic position, where bases at the allelic position whose identity can be affected by conversion of cytosine to uracil do not contribute to the strand specific base count set. Respective forward and reverse strand conditional probabilities are computed for each candidate genotype for the allelic position using the strand specific base count set and sequencing error estimate. Likelihoods are computed using a combination of these conditional probabilities and the prior genotype probability. From this, a determination is made as to whether the likelihoods support a variant call at the allelic position.

Abstract: Systems and methods for determining consensus base calls in nucleic acid sequencing are provided. A sequencing dataset is obtained corresponding to a plurality of base reads for a first base position within a plurality of base positions of a target nucleic acid molecule. The sequencing dataset includes at least two features, for each base read of the plurality of base reads. The at least two features are selected from among the features: a nucleotide base, a read quality score, a strand identifier, a trinucleotide context of the base read, and a confidence score associated with the trinucleotide context. The sequencing dataset is transformed into a feature tensor representing a distribution of the plurality of features in the sequencing dataset. The feature tensor is assessed with a classifier to determine a consensus base call for the first base position. The consensus base call comprises a predicted nucleotide base.

Abstract: The invention described herein provides for methods and systems for determining, selecting, and/or treating diseases and conditions caused by or associated with high quantities of methanogens in a subject, or diseases and conditions caused by or associated with low quantities of methanogens in a subject. In various embodiments, a therapy to inhibit the growth of methanogens or to promote the growth of methanogens are selected and/or administered to a subject in need thereof.