Abstract: The present disclosure provides methods of measuring a property of a macromolecule. The methods generally involve applying an empirically learned correction term to a test metric to generate a high-accuracy measurement. The present disclosure further provides a computer program product and a computer system for carrying out a subject method.

Abstract: An exemplary system, method and computer-accessible medium for generating a model(s), can include, for example, receiving first information related to raw data, generating second information by formatting the first information, generating third information related to a feature set(s) of the second information, generating the model(s) based on the second and third information. Fourth information related to a user-defined regularization of the second information can be received, fifth information can be generated based on a reformatting of the second information using the fourth information. A prediction(s) can be generated based on the model(s). The prediction(s) can be generated based on a time horizon(s).

Abstract: The invention provides, in some aspects, a statistical algorithm-driven digital system for automated optimization of a large number of key performance indicators (KPI) involved in social digital interactions among the users, contents and advertisement, further augmented by data-driven verification and recommendation. The users include humans from diverse socio-cultural-economic groups, whose identity may be pseudonymous (though persistent), and whose explicit features may remain private, though statistically imputable. The contents include webpages, downloads, videos, music, or other content accessed by the users. The advertisements include product placement, branding, appeal, surveys, or other third-party contents, not explicit sought by the user. A server application executing on the server digital device responds to requests received from the client digital devices for delivering thereto requested digital content.

Abstract: Methods, computer-accessible medium, and systems for generating a genome wide probe map and/or a genome wide haplotype sequence are provided. In particular, a genome wide probe map can be generated by obtaining a plurality of detectable oligonucleotide probes hybridized to at least one double stranded nucleic acid molecule cleaved with at least one restriction enzyme, and detecting the location of the detectable oligonucleotide probes. For example, genome wide haplotype sequence can be generated by analyzing at least one genome wide restriction map in conjunction with at least one genome wide probe map to determine distances between restriction sites of the genome wide restriction map(s) and locations of detectable oligonucleotide probes of the genome wide probe map(s) and defining a consensus map indicating restriction sites based on the genome wide restriction map(s) and/or locations of detectable oligonucleotide probes based on each of the genome wide probe map(s).

Abstract: A method for detecting rare genomic variants in a population of cells is disclosed. The method can detect de novo mutations in bacteria and analyze the impact of various physiological conditions on mutation rate, even though such effects would be too subtle to detect using other methods. The method can be used for detection of low-frequency subpopulations in the microbiome or in cancer.

Abstract: An exemplary system, method and computer accessible medium can be provided that can include generating a digital secure storage area(s) for a user(s), generating, in the secure storage area(s), a module(s) that can include information about the user(s), using a computer-implemented recommender agent(s) to select a receiver(s) to receive the first information and a signal(s) associated with the first information, where receiver(s) can include a verification agent(s), facilitating a verification of the signal(s) by the verification agent, and facilitating the receiver(s) to perform a task(s) based on the verification.

Abstract: An exemplary embodiment of system, method and computer-accessible medium can be provided to reconstruct models based on the probabilistic notion of causation, which can differ fundamentally from that can be based on correlation. A general reconstruction setting can be complicated by the presence of noise in the data, owing to the intrinsic variability of biological processes as well as experimental or measurement errors. To gain immunity to noise in the reconstruction performance, it is possible to use a shrinkage estimator. On synthetic data, the exemplary procedure can outperform currently known procedures and, for some real cancer datasets, there are biologically significant differences revealed by the exemplary reconstructed progressions. The exemplary system, method and computer accessible medium can be efficient even with a relatively low number of samples and its performance quickly converges to its asymptote as the number of samples increases.

Abstract: Methods, systems, and computer-readable media are provided which can identify and provide local variations in regions of similarity among two or more data sets. These data sets may be represented as sequences such as, e.g., genomic sequences or words in a text. The local variations in similarity levels can be provided by selecting an initial prior distribution relating the data sets, organizing the first data set into windows and the remaining data sets into blocks, using the priors to sample one or more sets of words from the first data set, computing a similarity curve from exact and inexact matches for these words and, if convergence of results is not achieved, computing a new set of priors and repeating the sampling and computation of similarity curves. The computations can be performed using an amount of computational time that is linearly proportional to the size of the data sets.

Abstract: An exemplary system method, and computer-accessible medium for initiating a protocol(s) can be provided, which can include, for example, generating a digitally encrypted perishable object(s), distributing the digitally encrypted perishable object(s) to a cyber-physical entity(s), determining if the cyber-physical entity(s) has received the digitally encrypted perishable object(s), and initiating at a predetermined protocol(s) based on the determination.

Abstract: An exemplary system, method and computer-accessible medium can be provided for generating an encrypted reference-based secure-compression of randomly located short sequence reads from a genome(s), which can, for example, including obtaining information related to the randomly located short sequence reads, obtaining second information related to a plurality of reference sequences for the genome(s), generating third information related to a set of edit calls containing location information based on the first and second information using a base-calling procedure and an alignment procedure, and generating the encrypted reference-based secure-compression of the first information based on the third information. The exemplary system, method and computer-accessible medium can facilitate the exemplary chemistry box to generate analog information to be locally and physically separated from informatics box interpreting digital data.

Abstract: Exemplary systems, methods and computer-accessible mediums can receive first data related to at least one first string arranged in a directed acyclic graph, compress the first data into second data, and can search the second data for a match of at least one second string. A node of the directed acyclic graph can encode at least one substring, and an edge of the directed acyclic graph can encode instructions for concatenating substrings.

Abstract: Systems and processes are provided for securely storing, retrieving, sharing, and selling private data, such as genome wide sequences, sequence related metadata, electronic healthcare data, biological data, demographic data, medical data, and other biomedical data, which, in turn, may allow the usage of genomic variations at multiple scales and across multiple population strata. In some examples, users may be matched with healthcare experts based on a medical need or interest. In other examples, an information-based market for utilizing the available data in a privacy-preserving manner may be provided. In these examples, individual or group data may be tracked, compared, rated, analyzed, and priced to allow individuals to establish connections and/or carry out financial transactions using their data with other participants, healthcare practitioners, and businesses.

Abstract: RNA sequencing techniques provide rapid base-calling and resequencing for improved bio-informatics. Exemplary embodiments of computer-implemented systems and methods can be provided, as applied to RNA sequence interpretation, enumeration and classification, etc.

Abstract: Methods, computer-accessible medium, and systems for generating a genome wide probe map and/or a genome wide haplotype sequence are provided. In particular, a genome wide probe map can be generated by obtaining a plurality of detectable oligonucleotide probes hybridized to at least one double stranded nucleic acid molecule cleaved with at least one restriction enzyme, and detecting the location of the detectable oligonucleotide probes. For example, genome wide haplotype sequence can be generated by analyzing at least one genome wide restriction map in conjunction with at least one genome wide probe map to determine distances between restriction sites of the genome wide restriction map(s) and locations of detectable oligonucleotide probes of the genome wide probe map(s) and defining a consensus map indicating restriction sites based on the genome wide restriction map(s) and/or locations of detectable oligonucleotide probes based on each of the genome wide probe map(s).

Abstract: Time-course data with an underlying causal structure may appear in a variety of domains, including, e.g., neural spike trains, stock price movements, and gene expression levels. Provided and described herein are methods, procedures, systems, and computer-accessible medium for inferring and/or determining causation in time course data based on temporal logic and algorithms for model checking. For example, according to one exemplary embodiment, the exemplary method can include receiving data associated with particular causal relationships, for each causal relationship, determining average characteristics associated with cause and effects of the causal relationships, and identifying the causal relationships that meet predetermined requirement(s) as a function of the average characteristics so as to generate a causal relationship.

Abstract: The present invention provides methods of detecting a nucleic acid analyte in a sample. The methods generally involve modifying immobilized nucleic acids from a sample onto an insoluble support in a substantially elongated configuration, where modification generates an identifying feature that identifies the analyte; and detecting the identifying feature(s) using scanning probe microscopy, to detect the analyte. The present invention further provides a method for assigning a profile of a feature to a nucleic acid. The present invention further provides a computer program product for use in a subject method. The present invention further provides a system for detecting a nucleic acid in a sample; and a system for assigning a profile of a feature to a nucleic acid. The present invention further provides a method for immobilizing a nucleic acid onto an insoluble support; and further provides insoluble support having nucleic acid(s) immobilized thereon.

Abstract: Methods, computer-accessible medium, and systems for generating a genome wide probe map and/or a genome wide haplotype sequence are provided. In particular, a genome wide probe map can be generated by obtaining a plurality of detectable oligonucleotide probes hybridized to at least one double stranded nucleic acid molecule cleaved with at least one restriction enzyme, and detecting the location of the detectable oligonucleotide probes. For example, genome wide haplotype sequence can be generated by analyzing at least one genome wide restriction map in conjunction with at least one genome wide probe map to determine distances between restriction sites of the genome wide restriction map(s) and locations of detectable oligonucleotide probes of the genome wide probe map(s) and defining a consensus map indicating restriction sites based on the genome wide restriction map(s) and/or locations of detectable oligonucleotide probes based on each of the genome wide probe map(s).

Abstract: A method, system and software arrangement in accordance with an exemplary embodiment of the present invention are provided to extract descriptive narrative from numerical experimental data augmented with ontological controlled vocabulary. One exemplary application of such system, method and software arrangement is in organizing gene-expression time course data in terms of biological processes that may be activated and deactivated as the biological system responds to its normal or perturbed environment. The present invention may also have biological applications to drug-or-vaccine discovery, understanding behavior of a cell in an altered diseased state (e.g., cancer, neuro-degeneration or auto-immune disease, etc.), genetically modifying a natural wild-type organism, genetic-engineering, etc. Other exemplary applications may include understanding neural behavior, market behavior of a population of users interacting on the Internet, etc.

Abstract: Exemplary systems, methods and computer-accessible mediums for assembling at least one haplotype or genotype sequence of at least one genome can be provided, which can include, obtaining a plurality of randomly located sequence reads, incrementally generating overlap relations between the randomly located sequence reads using a plurality of overlapper procedures, and generating a layout of some of the randomly located short sequence reads based on a function in combination with constraints based on information associated with the one genome while substantially satisfying the constraints. The score-function can be derived from overlap relations between the randomly located short sequence reads. A search can be performed together with score- and constraint-dependent pruning to determine the layout substantially satisfying the constraints. A part of the genome wide haplotype sequence or the genotype sequence of the genome can be generated based on the overlap relations and the randomly located sequence reads.

Abstract: A method, system and software arrangement in accordance with an exemplary embodiment of the present invention are provided to extract descriptive narrative from numerical experimental data augmented with ontological controlled vocabulary. One exemplary application of such system, method and software arrangement is in organizing gene-expression time course data in terms of biological processes that may be activated and deactivated as the biological system responds to its normal or perturbed environment. The present invention may also have biological applications to drug-or-vaccine discovery, understanding behavior of a cell in an altered diseased state (e.g., cancer, neuro-degeneration or auto-immune disease, etc.), genetically modifying a natural wild-type organism, genetic-engineering, etc. Other exemplary applications may include understanding neural behavior, market behavior of a population of users interacting on the Internet, etc.