Abstract: Systems and methods generate a projected image at an optimal exposure time. Images are captured different exposure times. Pixels that satisfy an intensity threshold percentage for each image are selected. The intensity values of the selected pixels are then evaluated to determine whether the selected pixels are distributed above a lower intensity threshold and below an upper intensity threshold. The linear relationship is projected to determine an optimal exposure time that has an optimal exposure time duration that exceeds each exposure time duration associated with each of the captured images when the linear relationship exists between each of the captured images. A projected image associated with the optimal exposure time is generated from one or more of the captured images.

Abstract: The present invention relates to a kit and nucleic acid chip for diagnosing bladder cancer using a bladder cancer-specific marker gene. More particularly, the invention relates to a kit and nucleic acid chip for diagnosing bladder cancer, which can detect the promoter methylation of a bladder cancer-specific gene, the promoter or exon region of which is methylated specifically in transformed cells of bladder cancer. The use of the diagnostic kit or nucleic acid chip of the invention enables diagnosis of bladder cancer at an early stage of transformation, thus enabling early diagnosis of bladder cancer, and can diagnose bladder cancer in a more accurate and rapid manner compared to a conventional method.

Abstract: The present invention relates to optimized aptamers and methods of using these aptamers.

Abstract: A method for use by an apparatus of a communication network comprises detecting (S22) that a user or user equipment attaching to the communication network belongs to a usage group, based on group identity information that is allocated to the user or user equipment and identifies the usage group, detecting (S24), based on the group identity information, whether or not a first rules function out of several rules functions has been allocated to another user or user equipment of the usage group, and in case it is detected that the first rules function has been allocated to another user or user equipment of the usage group, selecting (S26), for the user or user equipment, the first rules function.

Abstract: Composition, method and kit of parts for a simplified and safe extraction of nucleic acids from biological samples, such as crude and processed food, and subsequent analysis by polymerase chain reaction to the presence of animal material, genetically modified organisms, allergens and pathogens. The method comprises the addition of extracting composition together with hot water for extraction and stabilization of nucleic acids as well as removal of substances interfering with DNA polymerase activity.

Abstract: The present invention provides a formulation to link protein to a solid support that comprises one or more proteins, Oligo-dT and one or more non-volatile, water-soluble protein solvents, solutes or combination thereof in an aqueous solution. Further provided is a method of attaching a protein to a surface of a substrate. The formulations provided herein are contacted onto the substrate surface, printed thereon and air dried. The substrate surface is irradiated with UV light to induce thymidine photochemical crosslinking via the thymidine moieties of the Oligo-dT.

Abstract: The invention relates to a method for the high throughput discovery, detection and genotyping of one or more genetic markers in one or more samples, comprising the steps of restriction endonuclease digest of DNA, adaptor-ligation, optional pre-amplification, selective amplification, pooling of the amplified products, sequencing the libraries with sufficient redundancy, clustering followed by identification of the genetic markers within the library and/or between libraries and determination of (co-)dominant genotypes of the genetic markers.

Abstract: Methods of making deletion mutants of Cas9 proteins and making chimeric Cas9 proteins are described. The Cas9 N- and C-terminal domains may play critical roles in crRNAitracrRNA binding and/or PAM selectivity. To analyze activity, a series of domain exchange mutants between NM and STI (Streptococcus thermophilus Cas9) were made, replacing the N and/or C terminus of NM (Neisseria meningitides Cas9) with the homologous region from STI. The chimeric proteins were then tested using the transcriptional reporter assay described herein altering the guideRNA and/or Cas9 specific PAM within the reporter to determine the influence of the domain exchanges on protein specificity. None of the N-terminal domain swaps between NM and STI endowed NM with novel properties. The C-terminal exchange generated a NM-STI hybrid that was capable of interacting with the STI crRNAitracrRNA complex and was further able to suppress a reporter with a STI specific PAM.

Abstract: Methods and compositions for determining the presence of a polymorphism at a target nucleotide position in a plurality of target nucleic acid sequences is provided.

Abstract: The invention disclosed herein is based on the identification of novel mutations in the JAK2 gene and JAK2 protein. The invention provides compositions and methods useful for diagnosing hematopoietic diseases including, for example, myeloproliferative diseases. The invention also provides compositions and methods useful for determining a prognosis of an individual diagnosed as having a hematopoietic disease.

Abstract: The present invention relates to compositions and methods of target enrichment or selection of nucleic acids using hybridization, which can be used in, e.g., next-generation sequencing.

Abstract: The described invention relates to the identification of biomarkers for gastrointestinal diseases and provides methods utilizing the biomarkers for in drug discovery, monitoring of treatment efficacy, and diagnostics. The invention further provides methods for identifying a therapeutic target to treat ulcerative colitis, colorectal cancer, and Crohn's disease.

Abstract: Methods and compositions are provided for enriching for target sequences from a population of nucleic acids, that includes: combining in solution, a population of nucleic acids and a target isolation probe wherein the target isolation probe comprises an affinity binding domain; permitting a single stranded region of the target isolation probe to hybridize to all or a portion of a target sequence in the population of nucleic acids; selectively immobilizing the hybridized nucleic acids from the population containing the target sequences by associating the target isolation probe with a capture domain and removing unbound material; removing non-target sequences from the 3? end of the target sequence by means of one or more 3? exonucleases thereby generating a blunt ended duplex or a staggered end at the 3? end of the target sequence; optionally ligating a 3? duplex adaptor or a duplex end of a hairpin adaptor to the 3? end of the target sequence and the 5? end of the target isolation probe; extending the 3? end o

Abstract: There is described herein compounds, compositions and methods for inducing synthetic lethality in a cancer cell(s).

Abstract: The invention pertains to modifications for antisense oligonucleotides, wherein the modifications are used to improve stability and provide protection from nuclease degradation. The modifications could also be incorporated into double-stranded nucleic acids, such as synthetic siRNAs and miRNAs.

Abstract: The present invention provides a cationic lipid which can be utilized for nucleic acid delivery into the cytoplasm. The cationic lipid of the present invention is, for example, a compound represented by the following Formula (1) or a pharmaceutically acceptable salt thereof.

Abstract: The disclosed subject matter relates to an automated determination of cell-by-cell segmentation quality of a tissue specimen sample. A training set of cells is examined by an expert to determine which cells that include “good” segmentation and which cells include “poor” segmentation. A training model is build based on the image data of the cells in the training set. Image data from cells in a test specimen is obtained and that image data is compared to the training model to determine on a cell-by-cell basis which cells in the test specimen include “good” segmentation and which cells include “poor” segmentation. The accumulated data on the cells analyzed in the test specimen can be utilized to determine an overall segmentation quality score for the area of the test specimen in which the individual cells are located in the test specimen.

Abstract: The present invention is directed to sequencing of nucleic acids. A method is provided for sequencing based on immobilized nucleic acid on a surface. Advantageously, a long range detection mechanism is used for detecting, whether a nucleotide provided to the substrate of a biochip has been incorporated into the immobilized template nucleic acid. Various different alignment means are provided by the present invention which can be used for facilitating a rigidly locking of the orientation of the DNA complex, which complex comprises the template nucleic acid, the primer and the capture nucleic acid. Various different linker systems may be used to immobilize the DNA complex at a first and a second strand end, such that the desired alignment of the DNA complex is achieved. Also co-adsorbed molecules on the substrate surface can be used for such an aligning measure.

Abstract: A system and method for determining the location of a target mobile device in a communications network. A set of mobile devices in proximity to the target mobile device may be determined (210) as a function of a common parameter of information observed by mobile devices in the set. Measurement data may be shared (220) for the set of mobile devices and the target mobile device, and a location of the target mobile device (230) determined as a function of the shared measurement data. This sharing of measurement data may occur amongst the set of mobile devices and the target mobile device or may also occur at a communication network entity.

Abstract: A method for molecular communication within a nanonetwork. The method includes the steps of: (i) providing a nanonetwork communication system including a transmitter, a receiver, and a physical channel layer, the physical channel layer including a medium configured to allow a communication molecule to be transmitted from the transmitter to the receiver; (ii) transmitting, via the physical channel layer, the communication molecule from the transmitter in a plurality of bursts, wherein information is encoded in the concentration of the communication molecule; (iii) receiving the communication molecule by the receiver; and (iv) varying at least one of the plurality of bursts, wherein varying the plurality of bursts modulates the information transmitted by the communication molecule.

Abstract: Provided herein are photochemical crosslinkers and photocleavable crosslinkers and their uses in methods for cell selection from cell cultures. The photochemical crosslinkers comprise a fluorescent dye and a radical generator. The photocleavable crosslinkers comprise a photocleavable linker linking two electrophilic groups to each other. Also provided are systems for imaging cells comprising a plurality of cells crosslinked to extracellular matrix proteins using a crosslinker as described, an imaging apparatus, an illuminating apparatus, and software for image processing.

Abstract: A method for quantitatively evaluating chromatin structural changes using pixel imaging of the nucleus is provided. Pixel imaging of the nucleus can include capturing one or more images of a nucleus of one or more nucleic acid stain treated cells. The stain intensity can be measured by quantitating the intensity. The mean and/or standard deviation of stain intensity per pixel can be used to determine chromatin condensation levels or chromatin structural change.

Abstract: The present disclosure relates to a method of treating, ameliorating or preventing a disorder by blocking the signaling pathway of c-Met, wherein said method comprises the step of administering a therapeutically effective amount of a composition to a subject in need thereof, which composition contains a lipocalin mutein or a fragment or a variant thereof. In addition, the present disclosure relates to a diagnostic composition suitable for use in, e.g., an immuno-imaging technique to detect the presence of c-Met as well as the uses thereof.

Abstract: Provided are a fluorescent particle and a method for manufacturing the same. The fluorescent particle may include a gold nanoparticle; a silica shell covering the gold nanoparticle; and lanthanide group complex particles dispersed in the silica shell. Each of the lanthanide group complex particles may include a lanthanide group ion; a ligand bonded to the lanthanide group ion and including phosphorus; and a ligand bonded to the lanthanide group ion and having a beta diketone functional group. The fluorescent particle is observable with the naked eye and may emit light when ultraviolet light is irradiated. The fluorescent particle may be used for detecting and analyzing biomaterial samples.

Abstract: Disclosed are nucleic acid oligomers, including amplification oligomers, capture probes, and detection probes, for detection of Hepatitis E Virus (HEV) nucleic acid. Also disclosed are methods of specific nucleic acid amplification and detection using the disclosed oligomers, as well as corresponding reaction mixtures and kits.

Abstract: Nucleic acid oligonucleotide sequences are disclosed which include amplification oligomers and probe oligomers which are useful for detecting multiple types of human papillomaviruses (HPV) associated with cervical cancer. Methods for detecting multiple HPV types in biological specimens by amplifying HPV nucleic acid sequences in vitro and detecting the amplified products are disclosed.

Abstract: A method and an apparatus for analyzing a biosignal to respond to an infectious disease are provided. An analyzing method involves receiving biosignals of users of terminals and location information of the terminals, determining infectiousness of a condition of a user among the users by analyzing the location information and the biosignals, and transmitting feedback information regarding the infectiousness of the condition to one or more of the terminals.

Abstract: Example implementations relate to a fiber-shaped device for transmitting a distress signal to a remote computer. The fiber-shaped device includes a sensor, an analysis module that determines if a sensor signal from the sensor includes a trigger signal, and a wireless communication module to transmit a distress signal to a remote computer when the sensor signal includes the trigger signal.

Abstract: The invention provides improved methods for synthesizing polynucleotides, such as DNA and RNA, using enzymes and specially designed nucleotide analogs. Using the methods of the invention, specific sequences of polynucleotides can be synthesized de novo, base by base, in an aqueous environment, without the use of a nucleic acid template. Because the nucleotide analogs have an unmodified 3? OH, i.e., as found in “natural” deoxyribose and ribose molecules, the analogs result in natural polynucleotides suitable for incorporation into biological systems.

Abstract: The present invention relates to modulators of the interaction of astrin and raptor, and their uses in the treatment of mTOR related diseases, such as cancer.

Abstract: The present invention provides novel primers and methods for the detection of specific nucleic acid sequences. The primers and methods of the invention are useful in a wide variety of molecular biology applications and are particularly useful in allele specific PCR.

Abstract: The present invention relates to a cartridge (1) for the detection of an analyte (2) in a binding assay with magnetic labels (3), the cartridge comprising at least one capture binding agent (4) against a binding site on the analyte and comprising at least two magnetically labelled tracer binding agents (51 and 52) against further different binding sites on the analyte, characterized in that the cartridge comprises at least two regions (61 and 62) wherein a first region (61) comprises the at least one capture binding agent (4) and a first magnetically labelled tracer binding agent (51) and wherein a second region (62) comprises at least one capture binding agent (4) and a second magnetically labelled tracer binding agent (52).

Abstract: Compositions and methods for making a plurality of probes for analyzing a plurality of nucleic acid samples are provided. Compositions and methods for analyzing a plurality of nucleic acid samples to obtain sequence information in each nucleic acid sample are also provided.

Abstract: The invention provides methods of detecting an analyte by multi-stage mass spectrometry with improved S/N ratio. An analyte is labeled with a positively-charged mass tag to form a precursor ion that leads by anchimeric assistance to a greatly enhanced, analyte-characteristic first product ion that can, in turn, lead to a greatly enhanced, analyte-characteristic second product ion in a mass spectrometer. Either a three stage mass spectrometer (true MS3) or a two-stage mass spectrometer (MS2) operated in a pseudo MS3 mode can be used. The precursor ion is split via an anchimeric-assisted reaction to form a first product ion, which in turn can be fragmented to form the second product ion. The methods offer extreme ultrasensitivity, at the low amol level. The invention also provides anchimeric mass tags for use in the methods. A wide variety of previously undetectable analytes of biological or environmental origin can be detected and quantified.

Abstract: The present invention relates to methods and products for the localized or spatial detection of nucleic acid in a tissue sample and in particular to a method for localized detection of nucleic acid in a tissue sample comprising: (a) providing an array comprising a substrate on which multiple species of capture probes are directly or indirectly immobilized such that each species occupies a distinct position on the array and is oriented to have a free 3? end to enable said probe to function as a primer for a primer extension or ligation reaction, wherein each species of said capture probe comprises a nucleic acid molecule with 5? to 3?: (i) a positional domain that corresponds to the position of the capture probe on the array, and (ii) a capture domain; (b) contacting said array with a tissue sample such that the position of a capture probe on the array may be correlated with a position in the tissue sample and allowing nucleic acid of the tissue sample to hybridize to the capture domain in said capture probes;

Abstract: The invention relates to the diagnostic and therapeutic uses of a miRNA molecule, an equivalent or a source thereof in a disease and condition associated with neo-angiogenesis.

Abstract: Compositions, methods, and systems are provided for nucleotide analogs comprising protein shields for improving enzyme photostability in single molecule real time sequencing. Nucleotide analogs of the invention have a protein shield between the dye moieties and nucleotide moieties of the analog. The nucleotide analogs have two avidin proteins connected by a central dye component, and each avidin protein is further connected to a nucleotide component. The protein can prevent the direct interaction of the dye moiety with the enzyme carrying out nucleotide synthesis preventing photodamage to the enzyme. The nucleotide analogs of the invention can have multiple dyes and multiple nucleotide moieties.

Abstract: Computer implemented methods, and systems performing such methods for processing signal data from analytical operations and systems, and particularly in processing signal data from sequence-by-incorporation processes to identify nucleotide sequences of template nucleic acids and larger nucleic acid molecules, e.g., genomes or fragments thereof.

Abstract: The present invention relates to a method for producing RNA. In particular, the present invention relates to a method for producing RNA, which is scalable and provides RNA at a high purity. The present invention provides a method for producing RNA under GMP and/or cGMP-compliant conditions. The invention further provides specific processes for use as a quality control in the manufacturing of a template DNA and/or in a method for producing RNA, in particular by in vitro transcription.

Abstract: This invention is directed to a guide positioning sequencing technology of whole-genome DNA methylation. The invention provides a new detection method of nucleic acid methylation. In particular, a concept of “positioning” in the detection of nucleic acid methylation is provided. Specifically, a portion of a sequence is used for genome wide positioning and the other portion of the sequence is used for methylation detection in sequencing, thereby solving/defeating previously existing challenges in methylation detection and bioinformatics analysis of a genome.

Abstract: Provided is an RNA interference agent, with which a suppression effect on the off-target effect can be obtained with a simple system. The disclosures relate to an RNA interference agent provided with a single-stranded oligonucleotide passenger strand having one or two or more PAZ domain low-affinity units at the 3?-end.

Abstract: The invention generally relates to sequencing library preparation methods. In certain embodiments, two template nucleic acids are joined together by a linking molecule, such as a PEG derivative. The linked template nucleic acids is amplified, creating linked amplicons.

Abstract: Compositions, methods and systems are provided for isolating DNA having a modified or unnatural base. Circular DNA fragments, each comprising a double stranded DNA central region and single stranded regions on the ends of the double stranded regions, are obtained. Some of the fragments have one or more modified or unnatural base. The DNA fragments are treated with a primer and a polymerase such that the polymerase extends the primer to copy at least one of the strand of the double stranded region. This results in rendering the other strand single stranded. A binding protein or antibody that is specific to the modified or unnatural base is then used to isolate strands containing the modified or unnatural bases. Methods for loading such complexes onto substrates and for single molecule sequencing of such complexes are also provided.

Abstract: This invention relates to a quantitative method for determining whether a human subject has an impaired DNA mismatch repair function; providing a diagnostic sample taken from said human and producing a nuclear extract from said sample; providing MMR proficient and MMR deficient nuclear extracts as positive and negative controls, respectively; combining each nuclear extract with at least one mismatch bearing substrate DNA molecule; performing a mismatch repair assay; and determining whether said sample nuclear extract is capable of repairing said substrate DNA molecule; wherein said sample comprises normal, non-malignant constitutive cells, such as fibroblasts. The invention further relates to a kit providing necessary reagents for use in said method.

Abstract: The invention provides methods for pairwise sequencing of a double-stranded polynucleotide template, which methods result in the sequential determination of nucleotide sequences in two distinct and separate regions of the polynucleotide template.

Abstract: The instant invention provides for the assembly of large DNA oligonucleotide constructs by the self-assembly of multiple oligonucleotide fragments, wherein the assembly is guided by the hybridization between non-standard nucleotides that form non-standard nucleobase pairs orthogonal to the standard T:A and C:G nucleobase pairs. Adding nucleobase pairs increases the information density of the fragments, minimizing off-target hybridization. The invention further provides rules and methods for converting non-standard pairs into standard pairs using polymerase copying with conversion.

Abstract: The present disclosure provides novel apparatus including, though not necessarily limited to, biosensors utilizing semiconductor materials in electrolyte solutions and methods for using the same. The biosensors rely on a unique property wherein a charged body in the electrolyte solution produces a detectable change in the local conductivity of the semiconductor as the body approaches or travels near the semiconductor.

Abstract: The methods and apparatus of the present invention allow the evaluation of inflammation of the esophagus. Measurements may be utilized, for example, to diagnose a disease of the esophagus, to monitor inflammation of the esophagus, or to access the treatment of a disease of the esophagus. In one embodiment, the invention comprises a method for measuring esophageal inflammation comprising deploying a device into the esophagus of a subject, removing the device after a predetermined period of time, analyzing the device for a diagnostic indicator of esophageal inflammation and evaluating the diagnostic indicator to diagnose esophageal inflammation.

Abstract: The present invention relates to polyamide compounds and their use in pharmaceutical compositions and in medical applications for the treatment of human papillomavirus infections and/or polyomavirus infections.

Abstract: This disclosure provides methods for determining relative abundance of one or more non-host species in a sample from a host. Also provided are methods involving addition of known concentrations of synthetic nucleic acids to a sample and performing sequencing assays to identify non-host species such as pathogens. Also provided are methods of tracking samples, tracking reagents, and tracking diversity loss in sequencing assays.