Patents by Inventor Nevenka Dimitrova

Nevenka Dimitrova has filed for patents to protect the following inventions. This listing includes patent applications that are pending as well as patents that have already been granted by the United States Patent and Trademark Office (USPTO).

  • Patent number: 9528113
    Abstract: The present invention relates to a method of non-invasively monitoring the expression of a gene of interest in a cell when contacting said cell with a compound influencing the expression of said gene of interest. The present invention is also concerned with different isolated nucleic acid molecules comprising a coding sequence. Said coding sequence comprises a gene of interest-sequence encoding a gene of interest-polypeptide fused to a reporter sequence encoding a fluorescent reporter polypeptide and is operatively coupled to a promoter sequence. The present invention is also concerned with the use of a method and a nucleic acid molecule of the invention for delivering a compound influencing the expression of a gene of interest in a cell, monitoring the delivery of said compound as well as monitoring the influence on the expression of said gene of interest induced by said compound at the same time.
    Type: Grant
    Filed: May 14, 2009
    Date of Patent: December 27, 2016
    Assignee: Koninklijke Philips N.V.
    Inventors: Nevenka Dimitrova, Chetan Mittal
  • Publication number: 20160070858
    Abstract: Clinical decision support visualization methods that use information, pathways, or inferred regulatory networks for the entire genome, transcriptome, exome, or methylome to highlight genomic activity to further the understanding of the clinical condition of a patient or to contrast different patient groups.
    Type: Application
    Filed: September 2, 2015
    Publication date: March 10, 2016
    Inventors: ALEXANDER RYAN MANKOVICH, NEVENKA DIMITROVA
  • Publication number: 20150347679
    Abstract: In a predictive outcome assessment test for predicting whether a patient undergoing a breast cancer treatment regimen will achieve pathological complete response (pCR), differential gene expression level information are generated for an input set of genes belonging to the TGF-? signaling pathway. The differential gene expression level information compares baseline gene expression level information from a baseline sample (70) of a breast tumor of a patient acquired before initiating (71) a breast cancer therapy regimen to the patient and response gene expression level information from a response sample (72) of the breast tumor acquired after initiating the breast cancer therapy regimen by administering a first dose of bevacizumab to the patient. A pCR prediction for the patient is computed based on the differential gene expression level information for the input set of genes belonging to the TGF-? signaling pathway. Related predictive outcome assessment test development methods are also disclosed.
    Type: Application
    Filed: November 22, 2013
    Publication date: December 3, 2015
    Inventors: VINAY VARADAN, SITHARTHAN KAMALAKARAN, ANGEL JANEVSKI, NILANJANA BANERJEE, NEVENKA DIMITROVA, LYNDSAY HARRIS
  • Publication number: 20150310632
    Abstract: Image texture feature values are computed for a set of image texture features from an image of an anatomical feature of interest in a subject, and the subject is classified respective to a molecular feature of interest based on the computed image texture feature values. The image texture feature values may be computed from one or more gray level co-occurrence matrices (GLCMs), and the image texture features may include Haralick and/or Tamura image texture features. To train the classifier, reference image texture feature values are computed for at least the set of image texture features from images of the anatomical feature of interest in reference subjects. The reference image texture feature values are divided into different population groups representing different values of the molecular feature of interest, and the classifier is trained to distinguish between the different population groups based on the reference image texture feature values.
    Type: Application
    Filed: October 25, 2013
    Publication date: October 29, 2015
    Inventors: NILANJANA BANERJEE, NEVENKA DIMITROVA, VINAY VARADAN, SITHARTHAN KAMALAKARAN, ANGEL JANEVSKI, SAYAN MAITY
  • Publication number: 20150294063
    Abstract: Relevance of a study genetic variant observed in diagnostic subject genetic data that is associated by a clinical study with a phenotype characteristic is assessed as follows. A set of polymorphisms functionally related to the study genetic variant are identified. A foreground distribution is computed of variants observed in the diagnostic subject genetic data for the set of polymorphisms. A background distribution is computed of variants observed in genetic data of subjects of the clinical study for the set of polymorphisms. A comparison metric is computed comparing the foreground distribution and the background distribution. Relevance of the study variant to the diagnostic subject is quantified based on the comparison metric, with higher similarity of the foreground and background distributions corresponding to higher relevance.
    Type: Application
    Filed: November 15, 2013
    Publication date: October 15, 2015
    Applicant: KONINKLIJKE PHILIPS N.V.
    Inventors: Sitharthan Kalalakaran, Vinay Varadan, Nilanjana Banerjee, Angel Janevski, Nevenka Dimitrova
  • Patent number: 9074206
    Abstract: The present invention relates compositions and methods for microRNA (miRNA) expression profiling of colorectal cancer. In particular, the invention relates to a diagnostic kit of molecular markers for identifying one or more mammalian target cells exhibiting or having a predisposition to develop colorectal cancer, the kit comprising a plurality of nucleic acid molecules, each nucleic acid molecule encoding a miRNA sequence, wherein one or more of the plurality of nucleic acid molecules are differentially expressed in the target cells and in one or more control cells, and wherein the one or more differentially expressed nucleic acid molecules together represent a nucleic acid expression signature that is indicative for the presence of or the predisposition to develop colorectal cancer.
    Type: Grant
    Filed: November 13, 2009
    Date of Patent: July 7, 2015
    Assignee: Fudan University
    Inventors: Ying Wu, Hongguang Zhu, Jian Li, Liang Xu, Wilhelmus F. J. Verhaegh, Yiping Ren, Angel Janevski, Vinay Varadan, Zhaoyong Li, Nevenka Dimitrova
  • Publication number: 20150097868
    Abstract: An imaging visualization workstation (30) includes a graphical display device (32) and an electronic data processor, and is configured to perform a method including: spatially registering a biopsy sample extracted from a medical subject with a medical image (12) of the medical subject; combining the medical image with a graphical representation of information (20, 22) generated from the biopsy sample to generate a combined image in which the graphical representation is spatially delineated based on the spatial registration of the biopsy sample; and displaying the combined image on the graphical display device of the imaging visualization workstation. A method comprises extracting a biopsy sample spatial sample from a medical subject, processing the biopsy sample to generate biopsy information, acquiring a medical image of the subject, spatially registering the biopsy sample with the medical image, and displaying the medical image modified to include an annotation generated from the biopsy information.
    Type: Application
    Filed: March 20, 2013
    Publication date: April 9, 2015
    Inventors: Nilanjana Banerjee, Sitharthan Kamalakaran, Vinay Varadan, Angel Janevski, Nevenka Dimitrova
  • Publication number: 20150058322
    Abstract: When generating visual representations of gene activity pathways for clinical decision support, a validated pathway database that stores a plurality of validated pathways is accessed, wherein each pathway describes at least one interaction between a plurality of genes. A processor (18) is configured to execute computer-executable instructions stored in a memory (16), the instructions comprising visually representing gene activity level (28) for at least one gene across a plurality of populations, retrieving a pathway (32) from the validated pathway database, wherein the pathway includes the at least one gene, and visually representing gene activity levels for all genes in the pathway.
    Type: Application
    Filed: March 27, 2013
    Publication date: February 26, 2015
    Applicant: KONINKLIJKE PHILIPS N.V.
    Inventors: Nevenka Dimitrova, Angel Janevski, Nilanjana Banerjee, Vinay Varadan, Sitharthan Kamalakaran
  • Patent number: 8949878
    Abstract: A parental control system provides the ability to automatically filter a multimedia program content in real time based on stock and user specified criteria. The criteria are used to teach a learning module in the system what types of video program segments are to be considered sensitive or objectionable so that the module's understanding of what is sensitive and what is not can be applied to other video programs to provide real-time filtering. The multimedia program is broken down into audio, video, and transcript components so that sound effects, visual components and objects, and language can all be analyzed collectively to make a determination of whether offending material is being passed along in the multimedia program. The user has the option of training the system for any type of objectionable material, not just sex and violence.
    Type: Grant
    Filed: March 30, 2001
    Date of Patent: February 3, 2015
    Assignee: Funai Electric Co., Ltd.
    Inventors: Nevenka Dimitrova, Radu Jasinschi
  • Publication number: 20140379379
    Abstract: In a clinical decision support method, outputs of computer-implemented analytical modules are computed for a patient. Information is displayed for the patient pertaining to a clinical question comprising outputs computed for the patient of analytical modules associated with the clinical question. The analytical modules may include modules configured to perform in silico genetic/genomic tests using genetic/genome sequencing (whole genome, whole exome, whole transcriptome, targeted gene panels, etc) or microarray data. A clinical question-module matrix (CQ-M matrix) may be generated for the patient associating clinical questions with analytical modules, and the method may further include populating the clinical questions with outputs computed for the patient of the analytical modules associated with the clinical questions by the CQ-M matrix.
    Type: Application
    Filed: June 24, 2014
    Publication date: December 25, 2014
    Inventors: ANGEL JANEVSKI, SITHARTHAN KAMALAKARAN, NILANJANA BANERJEE, VINAY VARADAN, NEVENKA DIMITROVA, MINE DANISMAN TASAR
  • Publication number: 20140365243
    Abstract: A catalog (34) of molecular marker tests specifies molecular marker tests annotated with clinical applicability annotations. An electronic patient medical record (22) stores genetic sequencing data (20) of a patient. A clinical decision support (CDS) system (30) is configured to track the clinical context of the patient wherein the clinical context includes at least a disease diagnosis and a current patient care stage. A catalog search module (32) is configured to search the catalog of molecular marker tests to identify a molecular marker test having clinical applicability to the patient in the clinical context tracked by the CDS system. The search is automatically triggered by occurrence of a trigger event defined by a set of triggering rules. A testing module (44) is configured to perform a molecular marker test identified by the identification module in silico using the genetic sequencing data of the patient stored in the electronic patient medical record.
    Type: Application
    Filed: November 29, 2012
    Publication date: December 11, 2014
    Inventors: Vinay Varadan, Sitharthan Kamalakaran, Angel Janevski, Nilanjana Banerjee, Nevenka Dimitrova
  • Patent number: 8885957
    Abstract: A method for compression and/or decompression of bio-medical images such as DNA sequencing images is provided. The method comprises regeneration of a complete image using multiple distribution functions generated on the fly. The compression ratio achieved is in the order of 10 to 20 times, and is near lossless with respect to the clinically relevant information; which makes it well suited for these DNA sequencing images.
    Type: Grant
    Filed: July 22, 2013
    Date of Patent: November 11, 2014
    Assignee: Koninklijke Philips N.V.
    Inventors: Harsh Dhand, Nevenka Dimitrova, Hansraj Misra
  • Publication number: 20140249764
    Abstract: The present invention relates to a method for assembly of nucleic acid sequence data comprising nucleic acid fragment reads into (a) contiguous nucleotide sequence segment(s), comprising the steps of: (a) obtaining a plurality of nucleic acid sequence data from a plurality of nucleic acid fragment reads; (b) aligning said plurality of nucleic acid sequence data to a reference sequence; (c) detecting one or more gaps or regions of non-assembly, or non-matching with the reference sequence in the alignment output of step (b); (d) performing de novo sequence assembly of nucleic acid sequence data mapping to said gaps or regions of non-assembly; and (e) combining the alignment output of step (b) and the assembly output of step (d) in order to obtain (a) contiguous nucleotide sequence segment(s).
    Type: Application
    Filed: May 24, 2012
    Publication date: September 4, 2014
    Applicant: KONINKLIJKE PHILIPS N.V.
    Inventors: Sunil Kumar, Randeep Singh, Nevenka Dimitrova
  • Publication number: 20140229495
    Abstract: The present invention relates to a method for processing a subject's genomic data comprising (a) obtaining a subject's genomic sequence; (b) reducing the complexity and/or amount of the genomic sequence information; and (c) storing the genomic sequence information of step (b) in a rapidly retrievable form. The present invention further relates to a method wherein the step of reducing the complexity and/or amount of the genomic sequence information is carried out by cropping said genomic sequence information except for signature data pertaining to a disease or disorder, or by aligning a subject's genomic sequence with a reference sequence comprising signature data pertaining to a disease or disorder. Furthermore, the invention relates to a method wherein the use of a subject's functional genetic information, in particular gene expression data is included, as well as to a method, wherein the information is encoded in matrices and decoded and represented based on Markov chain processes.
    Type: Application
    Filed: January 19, 2012
    Publication date: August 14, 2014
    Applicant: KONINKLIJKE PHILIPS N.V.
    Inventors: Vishnu Vardhan Makkapati, Nevenka Dimitrova, Randeep Singh, Sunil Kumar
  • Publication number: 20140148344
    Abstract: The present invention relates to isolated nucleic acid molecules of SEQ ID NO: 1 to SEQ ID NO: 14 which show a single polymorphic change at position 501, where the wildtype nucleotide is replaced by an indicator nucleotide, respectively. The present invention further relates to the mentioned nucleic acid molecules wherein a panel of 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13 or 14 of the polymorphic, changed sequences comprising the mentioned indicator nucleotides constitutes a marker for beta thalassemia, in particular of beta thalassemia minor. Further envisaged are specific panels comprising SEQ ID NO: 1; or SEQ ID NO 1 and 2; or SEQ ID NO: 1, 2 and 3, or SEQ ID NO: 1, 2, 3 and 4; or SEQ ID NO: 1 to 5; or SEQ ID NO: 1 to 6; or SEQ ID NO: 1 to 7; or SEQ ID NO: 1 to 14; or SEQ ID NO: 8 and 14; or SEQ ID NO: 8 and 9; or SEQ ID NO: 2, 4 and 13.
    Type: Application
    Filed: March 29, 2012
    Publication date: May 29, 2014
    Applicant: KONINKLIJKE PHILIPS N.V.
    Inventors: Sina Vivekanandan Thrissur Kadavil, Sunil Kumar, Randeep Singh, Nevenka Dimitrova
  • Patent number: 8712935
    Abstract: The invention relates to selecting a set of candidate genes from a pool of genes. The method comprising receiving a set of gene data; arranging the set of gene data into a set of clusters with similar profiles by use of a clustering algorithm; and inputting the set of clusters into a genetic algorithm to select a set of candidate genes from the set of clusters. The method thus relates to hybrid between selection by clustering computation and selection by evolutionary computation. This hybrid is also referred to as an evolutionary clustering algorithm (ECA).
    Type: Grant
    Filed: December 23, 2009
    Date of Patent: April 29, 2014
    Assignee: Koninklijke Philips N.V.
    Inventors: Narayan Behera, Shruti Sinha, Rakesh Gupta, Ann Geoncy, Nevenka Dimitrova
  • Publication number: 20140107936
    Abstract: The present invention relates to a method of adapting a composite signature of a phenotype. The method comprises the steps of providing for a composite signature of a phenotype with at least two different data types, which were respectively generated by two different modalities of measuring a specimen. Due to an adaption of one part of the signature of the phenotype the resulting adapted phenotype signature can be used as an input for a signature evaluation tool that was derived from data measured by a third modality of measurement.
    Type: Application
    Filed: May 22, 2012
    Publication date: April 17, 2014
    Applicant: KONINKLIJKE PHILIPS N.V.
    Inventors: Angel Janevski, Kamakalaran Sitharthan, Banerjee Nilanjana, Varadan Vinay, Nevenka Dimitrova, Sankararaman Suryanarayanan
  • Publication number: 20140040264
    Abstract: The present invention relates to a method for stratifying a patient into a clinically relevant group comprising the identification of the probability of an alteration within one or more sets of molecular data from a patient sample in comparison to a database of molecular data of known phenotypes, the inference of the activity of a biological network on the basis of the probabilities, the identification of a network information flow probability for the patient via the probability of interactions in the network, the creation of multiple instances of network information flow for the patient sample and the calculation of the distance of the patient from other subjects in a patient database using multiple instances of the network information flow.
    Type: Application
    Filed: January 30, 2012
    Publication date: February 6, 2014
    Applicant: Hgh Tech Campus
    Inventors: Vinay Varadan, Prateek Mittal, Sitharthan Kamalakaran, Nevenka Dimitrova, Angel Janevski, Nilanjana Banerjee
  • Publication number: 20130308872
    Abstract: A method for compression and/or decompression of bio-medical images such as DNA sequencing images is provided. The method comprises regeneration of a complete image using multiple distribution functions generated on the fly. The compression ratio achieved is in the order of 10 to 20 times, and is near lossless with respect to the clinically relevant information; which makes it well suited for these DNA sequencing images.
    Type: Application
    Filed: July 22, 2013
    Publication date: November 21, 2013
    Applicant: KONINKLIJKE PHILIPS N.V.
    Inventors: HARSH DHAND, NEVENKA DIMITROVA, HANSRAJ MISRA
  • Publication number: 20130282404
    Abstract: A state machine (22) stores a current state (30) comprising a clinical context defined by available patient-related information relating to a medical patient, and identifies one or more available analytical tools of a set of analytical tools (24) that are applicable to the current state. A graphical user interface module (16) receives a user selection of an available analytical tool. The state machine loads patient-related information (40) to the user-selected available analytical tool (24sel) and invokes the user-selected available analytical tool to operate on the loaded patient-related information to generate additional patient-related information relating to the medical patient and/or graphical patient-related content relating to the medical patient. The state machine transitions from the current state (30) to a next state (30?) and/or invokes the graphical user interface module to display the graphical patient related content.
    Type: Application
    Filed: January 4, 2012
    Publication date: October 24, 2013
    Inventors: Angel Janevski, Sitharthan Kamalakaran, Christian Reichelt, Nilanjana Banerjee, Vinay Varadan, Nevenka Dimitrova