76 results about "ENCODE" patented technology

The present disclosure relates to methods and systems for identifying polypeptides using nucleic acid data obtained from a polypeptide sequencing device that encode amino acid sequence information into barcoded nucleic acid sequences that are later analyzed in a nucleic acid sequencer. Nucleic acid data generated as an output of the nucleic acid sequencer are processed to retrieve information about the analyzed polypeptides. The process includes generating a plurality of binder identifier strings for the generated nucleic acid data, and providing the plurality of binder identifier strings as input to a computer model configured to infer amino acid sequences of polypeptides from binder identifier strings. The disclosure finds utility at least in a variety of methods and related systems for high-throughput polypeptide analysis and sequencing.

A system and method for multi-level compaction of floating-point numbers and associated metadata within datasets. The system identifies floating-point numbers and their associated metadata, pre-encodes numbers into binary string representations, and encodes metadata into compact binary form. These encoded elements are linked together and indexed to indicate they represent floating-point numbers with metadata. The dataset is organized into multiple compaction levels based on semantic relationships between metadata elements. The system creates specialized indices for metadata-based retrieval, maintains relationship maps, and implements inheritance policies across hierarchical levels. During retrieval, the system reconstructs both the original floating-point values and their associated metadata, preserving hierarchical relationships. This approach enables more intelligent data organization, richer contextual information preservation, and more powerful query capabilities while maintaining efficient floating-point compaction.

A method and apparatus of encoding / decoding attributes of points of a pint cloud are provided. The encoding method subdivides a bounding box bounding the points to be encoded, encodes data representative of attributes of a point by referring to a subdivision to which said point belongs to; and encode data representative of a number of points comprised in each subdivision.

The present disclosure includes a composition including a) one or more nucleic acid constructs, wherein the one or more nucleic acid constructs encode: at least one of Replicase 68 (Rep68) and Replicase 78 (Rep78); and at least one protein of viral origin having nucleic acid replication and / or transgene amplification promotion activity, and b) nucleic acid construct comprising a coding region encoding at least one gene of interest (GOI) and at least one inverted terminal repeat (ITR) sequence on each side of the GOI, and methods of making and using the composition.

Some examples of the techniques described herein may provide encoding or decoding approaches to generate vectors that meet an orthogonality condition in vector compression procedures (e.g., vector compression or decompression). Encoder layers (e.g., neural network layers) on the encode side may generate orthogonal compressed vectors or decoder layers (e.g., neural network layers) on the decode side may generate orthogonal decompressed vectors. For instance, a neural network layer may be trained to generate a compressed or decompressed vector that satisfies an orthogonality condition relative to one or more previously compressed or decompressed vectors in accordance with a dependency order or a compression sequence. An indication of the dependency order may be communicated between the encode side and the decode side to order encoder or decoder layers (e.g., to execute encoder or decoder layers in the compression sequence) to produce compressed or decompressed vectors that satisfy an orthogonality condition.

The present invention discloses a method, system and computer-readable storage medium for analyzing substructures of biological tissues in spatial transcriptomics integrated with single-cell transcriptomics, comprising the following steps: S1. Obtain publicly available spatial transcriptome data and perform preprocessing; S2. Encode the preprocessed spatial transcriptome data using the STAGATE framework, and use the Louvain algorithm to cluster the encoding results to obtain the clustering results of the spatial transcriptome data; S3. Obtain publicly available single-cell RNA sequencing data and perform preprocessing, and divide the preprocessed single-cell RNA sequencing data into a training dataset and a test dataset; S4. Use the training dataset and the test dataset to train an XGBoost classification model to classify single-cell sequencing datasets homologous to the spatial transcriptome data to obtain single-cell classification results; S5. Use hypergraph partitioning to integrate the clustering results of the spatial transcriptome data and the single-cell classification results. The present invention improves the clustering accuracy of spatial transcript data and the classification accuracy of single-cell data.

The invention provides for delivery, engineering and optimization of systems, methods, and compositions for manipulation of sequences and / or activities of target sequences. Provided are delivery systems and tissues or organ which are targeted as sites for delivery. Also provided are vectors and vector systems some of which encode one or more components of a CRISPR complex, as well as methods for the design and use of such vectors. Also provided are methods of directing CRISPR complex formation in eukaryotic cells to ensure enhanced specificity for target recognition and avoidance of toxicity and to edit or modify a target site in a genomic locus of interest to alter or improve the status of a disease or a condition.

The present invention generally relates to compositions, methods applications and screens used in functional genomics that focus on gene function in a cell and that may use vector systems and other aspects related to Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR)-Cas systems and components thereof. Provided are vectors and vector systems, some of which encode one or more components of a CRISPR complex, as well as methods for the design and use of such vectors. Also provided are methods of directing CRISPR complex formation in eukaryotic cells and methods for utilizing the CRISPR-Cas system.

The present disclosure relates to methods and systems for identifying polypeptides using nucleic acid data obtained from a polypeptide sequencing device that encode amino acid sequence information into barcoded nucleic acid sequences that are later analyzed in a nucleic acid sequencer. Nucleic acid data generated as an output of the nucleic acid sequencer are processed to retrieve information about the analyzed polypeptides. The process includes generating a plurality of binder identifier strings for the generated nucleic acid data, and providing the plurality of binder identifier strings as input to a computer model configured to infer amino acid sequences of polypeptides from binder identifier strings. The disclosure finds utility at least in a variety of methods and related systems for high-throughput polypeptide analysis and sequencing.

An encoding device (100) comprises a memory (152) and a circuit (151) capable of accessing the memory (152). The circuit (151), in operation, encodes, for each of a plurality of faces constituting a three-dimensional mesh, a connection type relating to a connection relationship between the face to be processed and an unprocessed face, in the reverse order to a processing order in which the connection type is defined (S2201), and encodes related information for detecting a separation of connected components for a plurality of connection types, each of which is encoded in reverse order as a connection type (S2202). Each connected component corresponds to at least a portion of the three-dimensional mesh.

The present invention provides systems, methods, and compositions for manipulating the activity of sequences and / or target sequences. Provided are vectors and vector systems, some of which encode one or more components of a CRISPR complex, as well as methods for designing and using such vectors. Also provided are methods of directing the formation of CRISPR complexes in eukaryotic cells and methods for screening specific cells by introducing precise mutations using a CRISPR-Cas system.

An encoder is configured to encode a representation of a current picture of a video stream of multiple pictures. The encoder is further configured to encode, for each of a plurality of reference pictures included in a buffer description for the current picture, a respective one-bit flag according to one of two available values for the one-bit flag. The two available values for the one-bit flag include a first value explicitly indicating to a decoder to include the reference picture in a reference picture list for decoding the current picture. The two available values for the one-bit flag further include a second value explicitly indicating to the decoder not to include the reference picture in the reference picture list for decoding the current picture. The encoder is further configured to output the representation of the current picture and the one-bit flags.

Methods, apparatuses, and computer readable media for initial control frames with block acknowledgement request, where a STA comprises processing circuitry configured to: decode, from an access point (AP), an ultra-high reliability (UHR) buffer status report poll (BSRP) trigger frame, the BSRP trigger frame including a user information field, the user information field comprising an association identification (AID) field, the AID field indicating an AID of the STA, and the BSRP trigger frame including a common information field, the common information field comprising a field, the field indicating a format of a response from the STA, in response to the field indicating the format of the response from the STA is a non-HT duplicate PPDU, encode, for transmission to the AP, the non-HT duplicate PPDU, and in response to the field indicating the format of the response from the STA is a PPDU, encode, for transmission to the AP, the PPDU.

A system and method for multi-level compaction of floating-point numbers and associated metadata within datasets. The system identifies floating-point numbers and their associated metadata, pre-encodes numbers into binary string representations, and encodes metadata into compact binary form. These encoded elements are linked together and indexed to indicate they represent floating-point numbers with metadata. The dataset is organized into multiple compaction levels based on semantic relationships between metadata elements. The system creates specialized indices for metadata-based retrieval, maintains relationship maps, and implements inheritance policies across hierarchical levels. During retrieval, the system reconstructs both the original floating-point values and their associated metadata, preserving hierarchical relationships. This approach enables more intelligent data organization, richer contextual information preservation, and more powerful query capabilities while maintaining efficient floating-point compaction.

Provided herein are encrypted RNAs, and DNAs that encode encrypted RNAs, that enable increased translation of polypeptides, including therapeutic polypeptides, after being contacted by translation activators, and methods of their use.

The present application discloses a system and encoding / decoding method suitable for DNA storage of PB-level data. The data storage system includes multiple DNA clusters. The DNA cluster contains a data chain formed after binary data encoding, an XOR redundant chain generated by the data chain, an address chain of the DNA cluster at the storage system location, a basic information chain of the stored file, and a redundant chain generated by the XOR of the address chain and the file information chain. When a save operation is performed on a file with a preset suffix, a user-mode monitoring program receives an execution instruction and copies the file to a working directory, and encodes or decodes the file according to the file suffix. The result of the encoding or decoding operation is copied back to the original file directory. The present application enables the total capacity of the DNA database to reach above the PB level, allowing DNA storage to realize the application potential of high data density. At the same time, it can realize the automatic encoding of binary data and the automatic decoding of base sequences, streamline and automate the entire encoding and decoding process, and facilitate subsequent data management and archiving.

The present application discloses a multifunctional configurable encoder and an encoding method, relating to the fields of transmission and IP. It includes: a bus interface connected to a register and an encoding module. The encoding module includes a plurality of encoding modules connected in a preset order, and a logic control module for controlling the switching logic of the encoding modules. The plurality of encoding modules connected in a preset order respectively adopt different encoding methods; the register is used to store the control parameters received through the bus interface and send them to the encoding module; the encoding module is used to receive the data to be encoded. The logic control module selects at least one encoding module according to the logic control parameters in the control parameters, and the selected encoding module encodes according to the preset encoding order based on the corresponding encoding parameters in the control parameters. The present application can meet the usage requirements in different scenarios only by configuring relevant parameters, and has a wider application scenario.

Methods, apparatuses, and computer readable media for signaling changes in quality of service (QoS) characteristics includes processing circuitry configured to: encode, for transmission to an access point (AP), a stream classification service (SCS) request frame, the SCS request frame comprising a SCS descriptor element, the SCS descriptor element including an SCS identification (ID), an indication of a request to add, and a QoS characteristics element, decode, from the AP, a SCS response frame, the SCS response frame including the SCS ID and an indication that an SCS stream with the SCS identification is successfully added, decode, from the AP, a trigger frame, the trigger frame comprising uplink (UL) resource units for the STA, encode, for transmission to the AP, a frame in accordance with the UL resource units, data, and encode, for transmission to the AP, an indication of a change of traffic characteristics.

An encoder is configured to encode a representation of a current picture of a video stream of multiple pictures. The encoder is further configured to encode, for each of a plurality of reference pictures included in a buffer description for the current picture, a respective one-bit flag according to one of two available values for the one-bit flag. The two available values for the one-bit flag include a first value explicitly indicating to a decoder to include the reference picture in a reference picture list for decoding the current picture. The two available values for the one-bit flag further include a second value explicitly indicating to the decoder not to include the reference picture in the reference picture list for decoding the current picture. The encoder is further configured to output the representation of the current picture and the one-bit flags.

The present disclosure is directed toward systems, methods, and non-transitory computer-readable media for generating a matched-data-link tree defining relationships among individuals according to genetic data. For example, the disclosed systems can determine matches of matches using a novel matching database structure. The disclosed systems encode integers based on data matches of a data identifier and populate a match database with the integers. Correlating data match integers for a data identifier with data match integers for data matches, the disclosed systems generate matches of matches. The disclosed systems can generate relationship clusters from matches of matches. For example, the disclosed systems compare sets of data matches to discover groups of data matches with stronger data-match levels. The disclosed systems can generate and populate a data-link tree from a relationship cluster. In addition, the disclosed systems can merge one or more data-link trees into a single data-link tree.

In various implementations, methods and devices are disclosed that encode / decode a mapping between a class and a filter index, for instance for signaling ALF usage information with predictive coding. Besides, methods and devices are disclosed that encode / decode a filter index of a set of filters, for instance for signaling ALF usage information with predictive coding.

The invention provides for delivery, engineering and optimization of systems, methods and compositions for manipulation of sequences and / or activities of target sequences. Provided are delivery systems and tissues or organ which are targeted as sites for delivery. Also provided are vectors and vector systems some of which encode one or more components of a CRISPR complex, as well as methods for the design and use of such vectors. Also provided are methods of directing CRISPR complex formation in eukaryotic cells to ensure enhanced specificity for target recognition and avoidance of toxicity and to edit or modify a target site in a genomic locus of interest to alter or improve the status of a disease or a condition.

A two-dimensional code arrangement with at least one defined area. The defined area including basic symbols, and the basic symbols of the defined area being arranged on a surface. The basic symbols arranged in the defined area encode first code data and second code data, and the first code data comprise and / or describe position information.

An apparatus is configured to determine to encode or decode a first coding tree unit, where a second coding tree unit is at least partially different from the first coding tree unit, where the second coding tree unit comprises previously encoded or decoded coding tree units; in response to determining to encode or decode the first coding tree unit, determining at least one stored syntax element value based at least in part on the location of the first coding tree unit; and updating at least one state variable of the device based at least in part on the at least one stored syntax element value.

In various implementations, method and devices are disclosed that encode or decode a block of a picture with an intra merge prediction mode wherein an intra merge candidates list is constructed, an intra merge candidate from the intra merge candidates list is selected; and the block is encoded or decoded based at least on the selected intra merge candidate. According to a first aspect, the intra merge candidates list may include at least one temporal intra merge candidate for the block belonging to an inter slice. According to a second aspect, the intra merge candidates list may include at least one history-based intra merge candidate. According to another aspect, intra merge candidates list may be ordered based on template cost.

The invention provides for delivery, engineering and optimization of systems, methods, and compositions for manipulation of sequences and / or activities of target sequences. Provided are delivery systems and tissues or organ which are targeted as sites for delivery. Also provided are vectors and vector systems some of which encode one or more components of a CRISPR complex, as well as methods for the design and use of such vectors. Also provided are methods of directing CRISPR complex formation in eukaryotic cells to ensure enhanced specificity for target recognition and avoidance of toxicity and to edit or modify a target site in a genomic locus of interest to alter or improve the status of a disease or a condition.

The invention provides for engineering and optimization of systems, methods, and compositions for manipulation of sequences and / or activities of target sequences. Provided are vectors and vector systems, some of which encode one or more components of a CRISPR complex, as well as methods for the design and use of such vectors with additional functional domains. Also provided are methods of directing CRISPIR complex formation in prokaryotic and eukaryotic cells to ensure enhanced specificity for target recognition and avoidance of toxicity.

An encoder and a decoder are disclosed. The encoder includes a processing circuit configured to: receive raw data; divide the raw data into a plurality of raw q-bit words; assemble a data packet including N raw q-bit words from the plurality of raw q-bit words; identify a first encoder value and a second encoder value missing from the values ​​of the N raw q-bit words; encode the N raw q-bit words based on a one-to-one mapping from q-bit raw values ​​to q-bit encoded values ​​according to the first encoder value and the second encoder value to generate N encoded q-bit payload words, the N encoded q-bit payload words not containing words that are all zeros and not containing words that are all ones; generate a key representing the first encoder value and the second encoder value; and transmit the key and the N encoded q-bit payload words.

Various embodiments provide an apparatus, a method and a computer program product for end-to-end learned predictive coding of media frames. An example apparatus includes at least one processor; and at least one non-transitory memory including computer program code; wherein the at least one memory and the computer program code are configured to, with the at least one processor, cause the apparatus at least to perform: encode or decode one or more media frames for at least one neural network; wherein an inter-frame codec is applied to at least one media frame of the one or more media frames; and wherein a first decoded reference frame and a second decoded reference frame refer to reference frames for the at least one media frame.

The invention provides for delivery, engineering and optimization of systems, methods, and compositions for manipulation of sequences and / or activities of target sequences. Provided are delivery particle formulations and / or systems comprising one or more components of a CRISPR-Cas system, which are means for targeting sites for delivery. The delivery particle formulations of the invention are preferably nanoparticle delivery formulations and / or systems. Also provided are vectors and vector systems some of which encode one or more components of a CRISPR complex, as well as methods for the design and use of such vectors. Also provided are methods of directing CRISPR complex formation in eukaryotic cells to ensure enhanced specificity for target recognition and avoidance of toxicity and to edit or modify a target site in a genomic locus of interest to alter or improve the status of a disease or a condition.