Abstract: Methods and systems are provided for accurate and efficient identification and quantification of proteins. In an aspect, disclosed herein is a method for identifying a protein in a sample of unknown proteins, comprising receiving information of a plurality of empirical measurements performed on the unknown proteins; comparing the information of empirical measurements against a database comprising a plurality of protein sequences, each protein sequence corresponding to a candidate protein among a plurality of candidate proteins; and for each of one or more of the plurality of candidate proteins, generating a probability that the candidate protein generates the information of empirical measurements, a probability that the plurality of empirical measurements is not observed given that the candidate protein is present in the sample, or a probability that the candidate protein is present in the sample; based on the comparison of the information of empirical measurements against the database.

Abstract: The methods described herein provide a means of producing an array of spatially separated proteins. The method relies on covalently attaching each protein of the plurality of proteins to a structured nucleic acid particle (SNAP), and attaching the SNAPs to a solid support.

Abstract: Methods and systems are provided for accurate and efficient identification and quantification of proteins. In an aspect, disclosed herein is a method for identifying a protein in a sample of unknown proteins, comprising receiving information of a plurality of empirical measurements performed on the unknown proteins; comparing the information of empirical measurements against a database comprising a plurality of protein sequences, each protein sequence corresponding to a candidate protein among a plurality of candidate proteins; and for each of one or more of the plurality of candidate proteins, generating a probability that the candidate protein generates the information of empirical measurements, a probability that the plurality of empirical measurements is not observed given that the candidate protein is present in the sample, or a probability that the candidate protein is present in the sample; based on the comparison of the information of empirical measurements against the database.

Abstract: Methods and systems are provided for accurate and efficient identification and quantification of proteins. In an aspect, disclosed herein is a method for identifying a protein in a sample of unknown proteins, comprising receiving information of a plurality of empirical measurements performed on the unknown proteins; comparing the information of empirical measurements against a database comprising a plurality of protein sequences, each protein sequence corresponding to a candidate protein among a plurality of candidate proteins; and for each of one or more of the plurality of candidate proteins, generating a probability that the candidate protein generates the information of empirical measurements, a probability that the plurality of empirical measurements is not observed given that the candidate protein is present in the sample, or a probability that the candidate protein is present in the sample; based on the comparison of the information of empirical measurements against the database.

Abstract: Methods and systems are provided for accurate and efficient identification and quantification of proteins. In an aspect, disclosed herein is a method for iteratively identifying candidate proteins within a sample of unknown proteins, the method comprising receiving information of binding measurements of each of a plurality of affinity reagent probes to the unknown proteins, each affinity reagent probe configured to selectively bind to one or more candidate proteins; comparing at least a portion of the information of binding measurements against a database comprising a plurality of protein sequences, each protein sequence corresponding to a candidate protein; and iteratively generating a probability that each of one or more candidate proteins is present in the sample based on the comparison of the information of binding measurements of the candidate proteins against the database comprising the plurality of protein sequences.

Abstract: A system and a method determine network conditions. The system includes a server computer and a client computer. The server computer is configured to transmit data packets comprising a data object from the server computer to the client computer. The client computer includes a transmission latency detector and a transmission bandwidth detector. The transmission latency detector uses transmission time and receipt time values to determine the changes in time it takes selected portions of the data object to be transmitted from the server computer to the client computer. The transmission bandwidth detector uses identified back-to-back data packets to determine the transmission bandwidth between the server computer and the client computer.

Abstract: A system and method provide random access to a multimedia object over a network. One embodiment of the invention includes a streaming media server that is connected to a client computer over a network. The streaming media server includes at least one multimedia object that is adapted for transmission (“streaming”) across the network. A pre-roll calculation program determines a pre-roll for each segment of the multimedia object and generates a modified multimedia object which includes a pre-roll for each of its segments, a pre-roll identifying a portion of the multimedia object to be transmitted by the streaming media server and received by the client computer prior to playback of the multimedia object at a selected segment. The pre-roll allows the client computer to present, starting at a selected segment, the multimedia object in its entirety without interruption.

Abstract: A distributed file system enables the intelligent storing and retrieval of files among a plurality of storage units. The distributed file system utilizes a metadata data structure to track and manage detailed information about each file, including, for example, the device and block locations of the file's data blocks, to permit different levels of replication and/or redundancy. The distributed file system includes a switch to receive a read request for a file and to send the read request to one of the storage units. Each of the plurality of storage units is operable to monitor access to the file, such that a block cache module is operable to perform a scalable number of packet read aheads, wherein the scalable number is based on at least a current read rate and a current latency of a link to access the at least one file.

Abstract: A system and method provide random access to a multimedia object over a network. One embodiment of the invention includes a streaming media server that is connected to a client computer over a network. The streaming media server includes at least one multimedia object that is adapted for transmission (“streaming”) across the network. A pre-roll calculation program determines a pre-roll for each segment of the multimedia object and generates a modified multimedia object which includes a pre-roll for each of its segments, a pre-roll identifying a portion of the multimedia object to be transmitted by the streaming media server and received by the client computer prior to playback of the multimedia object at a selected segment. The pre-roll allows the client computer to present, starting at a selected segment, the multimedia object in its entirety without interruption.

Abstract: A system and method provide random access to a multimedia object over a network. One embodiment of the invention includes a streaming media server that is connected to a client computer over a network. The streaming media server includes at least one multimedia object that is adapted for transmission (“streaming”) across the network. A pre-roll calculation program determines a pre-roll for each segment of the multimedia object and generates a modified multimedia object which includes a pre-roll for each of its segments, a pre-roll identifying a portion of the multimedia object to be transmitted by the streaming media server and received by the client computer prior to playback of the multimedia object at a selected segment. The pre-roll allows the client computer to present, starting at a selected segment, the multimedia object in its entirety without interruption.

Abstract: The intelligent distributed file system enables the storing of file data among a plurality of smart storage units which are accessed as a single file system. The intelligent distributed file system utilizes a metadata data structure to track and manage detailed information about each file, including, for example, the device and block locations of the file's data blocks, to permit different levels of replication and/or redundancy within a single file system, to facilitate the change of redundancy parameters, to provide high-level protection for metadata, to replicate and move data in real-time, and so forth.

Abstract: The intelligent distributed file system enables the storing of file data among a plurality of smart storage units which are accessed as a single file system. The intelligent distributed file system utilizes a metadata data structure to track and manage detailed information about each file, including, for example, the device and block locations of the file's data blocks, to permit different levels of replication and/or redundancy within a single file system, to facilitate the change of redundancy parameters, to provide high-level protection for metadata, to replicate and move data in real-time, and to permit the creation of virtual hot spares among the smart storage units without the need to idle any single smart storage unit in the intelligent distributed file system.

Abstract: A system and a method determine network conditions. The system includes a server computer and a client computer. The server computer is configured to transmit data packets comprising a data object from the server computer to the client computer. The client computer includes a transmission latency detector and a transmission bandwidth detector. The transmission latency detector uses transmission time and receipt time values to determine the changes in time it takes selected portions of the data object to be transmitted from the server computer to the client computer. The transmission bandwidth detector uses identified back-to-back data packets to determine the transmission bandwidth between the server computer and the client computer.

Abstract: A system and a method determine network conditions. The system includes a server computer and a client computer. The server computer is configured to transmit data packets comprising a data object from the server computer to the client computer. The client computer includes a transmission latency detector and a transmission bandwidth detector. The transmission latency detector uses transmission time and receipt time values to determine the changes in time it takes selected portions of the data object to be transmitted from the server computer to the client computer. The transmission bandwidth detector uses identified back-to-back data packets to determine the transmission bandwidth between the server computer and the client computer.

Abstract: A communications system and method provide a seamless switch from a first session to a plurality of multicast sessions. A server transmits data over both a first session and alternatingly between a plurality of synchronized multicast sessions. At predetermined time intervals, the server stops transmitting data over the currently active multicast session and starts transmitting over an idle multicast session. The server is further responsive to a request to stop transmitting the data over the first session at a time when the server alternates transmission between the multicast sessions. The time intervals are advantageously sufficient to allow a receiver to join an idle multicast channel and to send a request to stop the data transmission over the first session.

Abstract: A distributed file system enables the intelligent storing and retrieval of files among a plurality of storage units. The distributed file system utilizes a metadata data structure to track and manage detailed information about each file, including, for example, the device and block locations of the file's data blocks, to permit different levels of replication and/or redundancy. The distributed file system includes a switch to receive a read request for a file and to send the read request to one of the storage units. Each of the plurality of storage units is operable to monitor access to the file, such that a block cache module is operable to perform a scalable number of packet read aheads, wherein the scalable number is based on at least a current read rate and a current latency of a link to access the at least one file.

Abstract: The intelligent distributed file system enables the storing of file data among a plurality of smart storage units which are accessed as a single file system. The intelligent distributed file system utilizes a metadata data structure to track and manage detailed information about each file, including, for example, the device and block locations of the file's data blocks, to permit different levels of replication and/or redundancy within a single file system, to facilitate the change of redundancy parameters, to provide high-level protection for metadata, to replicate and move data in real-time, and so forth.

Abstract: The intelligent distributed file system enables the storing of file data among a plurality of smart storage units which are accessed as a single file system. The intelligent distributed file system utilizes a metadata data structure to track and manage detailed information about each file, including, for example, the device and block locations of the file's data blocks, to permit different levels of replication and/or redundancy within a single file system, to facilitate the change of redundancy parameters, to provide high-level protection for metadata, to replicate and move data in real-time, and so forth.

Abstract: The intelligent distributed file system enables the storing of file data among a plurality of smart storage units which are accessed as a single file system. The intelligent distributed file system utilizes a metadata data structure to track and manage detailed information about each file, including, for example, the device and block locations of the file's data blocks, to permit different levels of replication and/or redundancy within a single file system, to facilitate the change of redundancy parameters, to provide high-level protection for metadata, to replicate and move data in real-time, and so forth.

Abstract: A communications system and method provide a seamless switch from a first session to a plurality of multicast sessions. A server transmits data over both a first session and alternatingly between a plurality of synchronized multicast sessions. At predetermined time intervals, the server stops transmitting data over the currently active multicast session and starts transmitting over an idle multicast session. The server is further responsive to a request to stop transmitting the data over the first session at a time when the server alternates transmission between the multicast sessions. The time intervals are advantageously sufficient to allow a receiver to join an idle multicast channel and to send a request to stop the data transmission over the first session.