In Silico Screening Patents (Class 506/8)
  • Publication number: 20110301048
    Abstract: The present invention relates to genetic markers whose expression is correlated with breast cancer. Specifically, the invention provides sets of markers whose expression patterns can be used to differentiate clinical conditions associated with breast cancer, such as the presence or absence of the estrogen receptor ESR1, and BRCA1 and sporadic tumors, and to provide information on the likelihood of tumor distant metastases within five years of initial diagnosis. The invention relates to methods of using these markers to distinguish these conditions. The invention also relates to kits containing ready-to-use microarrays and computer software for data analysis using the statistical methods disclosed herein.
    Type: Application
    Filed: November 23, 2010
    Publication date: December 8, 2011
    Applicants: MERCK SHARP & DOHME CORP., THE NETHERLANDS CANCER INSTITUTE
    Inventors: HongYue Dai, Yudong He, Peter S. Linsley, Mao Mao, Christopher J. Roberts, Laura Johanna Van't Veer, Marc J. Van de Vijver, Rene Bernards, A.A. M. Hart
  • Publication number: 20110287953
    Abstract: The preset invention relates to a process for discovering potential treatment strategy for a given disease, providing a niche for PPI network construction, target prioritization, and potential drug identification for a given disease, particular a cancer, based on the interaction between prioritized NPC targets (e.g. cliques and bottleneck genes) and drugs.
    Type: Application
    Filed: May 23, 2011
    Publication date: November 24, 2011
    Inventors: Chi-Ying Huang, Ming-Ying Lan, Ming-Huang Chen
  • Publication number: 20110288083
    Abstract: The present invention relates to a method of identifying compounds useful in inhibiting protein kinase-like endoplasmic reticulum protein kinase (PERK). The method comprises providing a first model comprising PERK active domains, where the said active domains are selected from the group consisting of the peptide spanning from amino acid residue Asp144 to amino acid residue Ser191 of SEQ ID NO: 1 and a peptide comprising the amino acid residue at position 7 of SEQ ID NO: 1, providing one or more candidate compounds, evaluating contact between the candidate compounds and the first model to determine which of the one or more candidate compounds have an ability to bind to and/or fit in the first model, and identifying the compounds which, based on said evaluating, have the ability to bind to and/or fit in the first model as compounds potentially useful for inhibiting PERK.
    Type: Application
    Filed: May 19, 2011
    Publication date: November 24, 2011
    Applicant: NEW YORK UNIVERSITY
    Inventors: Timothy CARDOZO, Hong WANG, David Ron
  • Publication number: 20110280813
    Abstract: The invention is related to various methods for inhibiting or reducing biofilm formation, treating a biofilm production-related disorder, preventing biofilm formation, and screening for neuraminidase inhibitors.
    Type: Application
    Filed: November 13, 2009
    Publication date: November 17, 2011
    Inventors: Alice Prince, Liang Tong
  • Publication number: 20110275558
    Abstract: The present invention relates to the field of medical treatments for diseases and disorders. More specifically, the present invention relates to the use of the lanthionine synthetase component C-like (LANCL) proteins as therapeutic targets for novel classes of anti-inflammatory, immune regulatory and antidiabetic drugs.
    Type: Application
    Filed: May 4, 2011
    Publication date: November 10, 2011
    Applicant: Virginia Tech Intellectual Properties, Inc.
    Inventors: Josep BASSAGANYA-RIERA, Pinyi LU, Raquel HONTECILLAS
  • Publication number: 20110269634
    Abstract: The present invention provides an approach for the simultaneous determination of the activation states of a plurality of proteins in single cells. This approach permits the rapid detection of heterogeneity in a complex cell population based on activation states, and the identification of cellular subsets that exhibit correlated changes in activation within the cell population. Moreover, this approach allows the correlation of cellular activities or properties. In addition, the use of potentiators of cellular activation allows for characterization of such pathways and cell populations.
    Type: Application
    Filed: April 7, 2011
    Publication date: November 3, 2011
    Inventors: Omar D. Perez, Garry P. Nolan, Jonathan M. Irish
  • Publication number: 20110269633
    Abstract: Materials and Methods related to developing a unipolar depression (MDD) disease score in a subject using a multi-parameter system to measure a plurality of parameters, and an algorithm to calculate a score.
    Type: Application
    Filed: March 11, 2009
    Publication date: November 3, 2011
    Inventors: John Bilello, Yiwu He, Bo Pi
  • Publication number: 20110263444
    Abstract: Disclosed is a method for examining prognosis of breast cancer including the steps of: (A) extracting RNA from a specimen collected from a subject, (B) preparing a determination sample using the extracted RNA, (C) determining the expression level of each gene in the specific gene groups using the obtained determination sample, (D) analyzing the expression level of the determined each gene, and (E) examining prognosis of breast cancer, based on the obtained analysis result are performed.
    Type: Application
    Filed: April 21, 2011
    Publication date: October 27, 2011
    Applicants: SYSMEX CORPORATION, OSAKA UNIVERSITY
    Inventors: Shinzaburou NOGUCHI, Yasuto NAOI, Kazuki KISHI, Kengo GOTOH
  • Publication number: 20110257023
    Abstract: The present invention generally relates to methods of rapidly and efficiently searching biologically-related data space. More specifically, the invention includes methods of identifying bio-molecules with desired properties, or which are most suitable for acquiring such properties, from complex bio-molecule libraries or sets of such libraries. The invention also provides methods of modeling sequence-activity relationships. As many of the methods are computer-implemented, the invention additionally provides digital systems and software for performing these methods.
    Type: Application
    Filed: June 24, 2011
    Publication date: October 20, 2011
    Applicant: CODEXIS MAYFLOWER HOLDINGS, LLC
    Inventors: Claes Gustafsson, Sridhar Govindarajan, Robin A. Emig, Richard John Fox, Ajoy K. Roy, Jeremy S. Minshull, S. Christopher Davis, Anthony R. Cox, Phillip A. Patten, Linda A. Castle, Daniel L. Siehl, Rebecca Lynne Gorton, Teddy Chen
  • Publication number: 20110245092
    Abstract: Materials and Methods related to developing a unipolar depression (MDD) disease score in a subject using a multi-parameter system to measure a plurality of parameters, and an algorithm to calculate a score.
    Type: Application
    Filed: March 4, 2009
    Publication date: October 6, 2011
    Inventors: John Bilello, Yiwu He, Bo Pi
  • Publication number: 20110237446
    Abstract: A system and method to search spectral databases to identify unknown materials, specifically pathogenic microorganisms. A library is provided, having sublibraries containing reference data sets of known materials and test data sets, both generated by at least one spectroscopic data generating instrument. For each test data set, each sublibrary associated with the instrument used is searched. A set of scores for each searched sublibrary is produced, representing the likelihood of a match between the reference data set and test data set. Relative probability values are calculated for each searched sublibrary. All relative probability values are fused producing a set of final probability values, used in determining whether the unknown material is represented through a known material in the library. The known material represented in the libraries having the highest final probability value is reported, if the highest final probability value is greater than or equal to the minimum confidence value.
    Type: Application
    Filed: April 7, 2011
    Publication date: September 29, 2011
    Applicant: Chemlmage Corporation
    Inventors: Patrick Treado, Robert Schweitzer
  • Publication number: 20110230362
    Abstract: A method for determining the presence of a copy number imbalance in genomic DNA of a test sample is provided. The method can separately measure hybridization of a single test sample to a first hybridization array and hybridization of a plurality of reference samples to a plurality of other, respective test arrays. A determination of copy number can be based on the best fit reference array, relative to the test array. The best fit can be determined based on the closest or most similar signal-to-noise ratio of the measured signals.
    Type: Application
    Filed: March 16, 2010
    Publication date: September 22, 2011
    Applicant: BLUEGNOME LIMITED
    Inventors: Andrew CRAIG, Anthony BROWN, Nicholas HAAN
  • Publication number: 20110214204
    Abstract: The invention provides isolated pyruvate dehydrogenase kinase nucleic acids and their encoded polypeptides. The present invention provides methods and compositions relating to altering pyruvate dehydrogenase kinase levels in plants. The invention further provides recombinant expression cassettes, host cells, transgenic plants, and antibody compositions.
    Type: Application
    Filed: May 12, 2011
    Publication date: September 1, 2011
    Applicant: EI DU PONT DE NEMOURS AND COMPANY; AND PIONEER HI-BRED INTERNATIONAL INC
    Inventors: Quinn Qun Zhu, Sabine S. Hantke, Xiping Niu, Zheng Peizhong, Michele Morgante, Joan T. Odell, Saverio Carl Falco, Yiwen Fang, J. Antoni Rafalski, Hajime Sakai, Edgar B. Cahoon, Rebecca E. Cahoon, Jian-Ming Lee, Guo-Hua Miao, Zhongsen Li, Anthony J. Kinney
  • Publication number: 20110213746
    Abstract: A method for analyzing a mixture includes identifying a plurality of possible components of the mixture, calculating at least one feature for at least a portion of the plurality of possible components, and calculating a probability value for at least a portion of the plurality of possible components based on the at least one feature and at least one transfer function
    Type: Application
    Filed: February 26, 2010
    Publication date: September 1, 2011
    Inventors: Edita Botonjic-Sehic, James H. Grassi, Hacene Boudries, Ivan E. Freeman, JR., Young Kyo Lee, Sridhar Venkataraman Dasaratha, Thirukazhukundram Subrahmaniam Vignesh, Saratchandra Shanmukh, Malathi Yarra
  • Publication number: 20110207618
    Abstract: According to an embodiment of the present invention, it is possible to rapidly and accurately predict a class label of a predetermined test sample by extracting a disease-specific gene pair from gene pairs on a microarray data set representing an expression level for each of genes of a genome and for each of a plurality of samples by considering the correlation in a normal class and the correlation in a disease class, selecting a highest specific gene pair with the highest correlation among the extracted disease-specific genes, and predicting the class label of the predetermined test sample by using the selected highest specific gene pair.
    Type: Application
    Filed: February 24, 2010
    Publication date: August 25, 2011
    Applicant: Industry-Academic Cooperation Foundation, Yonsei University
    Inventors: Sang Hyun Park, Jae Gyoon Ahn, Eun Ji Shin, Young Mi Yoon
  • Patent number: 8003572
    Abstract: The present invention provides methods for identifying compounds that selectively bind one or more active sites within an ubiquitin conjugating enzyme. The compounds identified by the methods are useful in the treatment of disorders attributed to dysregulated ubiquitin conjugating enzyme function, specifically in hyperproliferative disorders.
    Type: Grant
    Filed: December 28, 2006
    Date of Patent: August 23, 2011
    Inventor: Amit Banerjee
  • Publication number: 20110201510
    Abstract: Disclosed is a method for detecting one or both of the native material in an object and any foreign material in the object by parallel-mode spectroscopy, comprising parallel-mode data acquisition, signal processing and data reduction and providing results. Parallel-mode data acquisition comprises producing an interrogating signal simultaneously containing electromagnetic radiation of sufficient bandwidth in the range of approximately 10 GHz to approximately 25 THz to allow simultaneous detection of a plurality of signals at a plurality of frequencies, each signal being at some amplitude, which collectively provide a unique spectral signature of a material whose detection is desired. The signal processing and data reduction comprises processing a signal resulting from exposing the object to the interrogating radiation to produce a three-dimensional data matrix representative of at least any foreign or native material associated with the object.
    Type: Application
    Filed: February 14, 2011
    Publication date: August 18, 2011
    Applicant: Advanced Fusion Systems LLC
    Inventor: Curtis A. Birnbach
  • Publication number: 20110195851
    Abstract: Systems and methods for determining therapeutic potential. In at least one embodiment of a system of the present disclosure, the system comprises a detection platform, a computer processor and a database. The processor, in at least one embodiment of a method of the present disclosure, has and executes a software program operational to determine a binding characteristic of the detection agent and a stabilized diagnostic marker in each of the plurality of detection sites on the platform, compare the binding characteristic, and determining the stabilizing agent with the greatest effect on the binding characteristic between the detection agent and the diagnostic marker. Further, at least one embodiment of a system for determining the therapeutic potential of a therapeutic compound of the present disclosure is able to generate a binding record using the compared binding characteristics, and deliver the binding record to a recipient.
    Type: Application
    Filed: October 18, 2010
    Publication date: August 11, 2011
    Inventors: Richard H. Selinfreund, Rakesh Vig, Richard P. Gill
  • Publication number: 20110191867
    Abstract: The invention provides peptide epitopes for use in the prevention and/or treatment of influenza or for the development of such treatment or vaccine against influenza. The invention also relates to a method for evaluating the potential of a chemical entity, such as an antibody, to bind to a peptide epitope derived from the divalent sialoside binding site of hemagglutinin protein of influenza virus, and to conjugates containing one or more such peptide epitopes. The peptide epitopes of the invention are cyclic peptides comprising a 7-mer peptide derived from H1, H3 or H5 hemagglutinin of influenza virus. The 7-mer peptide has a sequence corresponding to the loop sequence at positions 220-226 of X31-hemagglutinin.
    Type: Application
    Filed: October 24, 2008
    Publication date: August 4, 2011
    Applicant: GLYKOS FINLAND OY
    Inventors: Jari Natunen, Jukka Hiltunen, Ritva Niemela, Jari Helin, Olli Aitio
  • Publication number: 20110189199
    Abstract: The invention provides for a method for screening compounds that bind to and modulate the hair-specific G-protein coupled receptor, P2RY5. The invention further provides for methods for controlling hair growth by administering a P2RY5 modulating compound to a subject.
    Type: Application
    Filed: July 7, 2010
    Publication date: August 4, 2011
    Inventor: Angela M. Christiano
  • Publication number: 20110177959
    Abstract: Methods and devices for diagnosing, monitoring, or determining kidney transplant rejection or an associated disorder in a mammal are described. In particular, methods and devices for diagnosing, monitoring, or determining kidney transplant rejection or an associated disorder using measured concentrations of a combination of three or more analytes in a test sample taken from the mammal are described.
    Type: Application
    Filed: August 6, 2010
    Publication date: July 21, 2011
    Applicant: Rules-Based Medicine, Inc.
    Inventors: Michael D. Spain, James P. Mapes, Samuel T. Labrie, Ralph L. McDade, Dominic P. Eisinger, Karri L. Ballard, Daniel R. Salomon, Michael Abecassis
  • Publication number: 20110166032
    Abstract: The present invention provides methods for design and identification of Vps10p domain receptor specific molecular imaging ligands based on the atomic coordinates of said Vps10p-domain. The present invention also relates to the preparation and use of such ligands for the preparation of a target specific imaging reagent or molecular imaging probe useful in detection of said Vps10p-domain receptor involved in disease.
    Type: Application
    Filed: April 27, 2009
    Publication date: July 7, 2011
    Applicant: H. LUNDBECK A/S
    Inventor: Jens Claus Munck Petersen
  • Publication number: 20110165569
    Abstract: DNA taggants in which the nucleotide sequences are defined according to combinatorial mathematical principles. Methods of defining nucleotide sequences of the combinatorial DNA taggants, and using such taggants for authentication and tracking and tracing an object or process are also disclosed.
    Type: Application
    Filed: January 5, 2011
    Publication date: July 7, 2011
    Applicant: JEANSEE LLC
    Inventor: Anthony J. MACULA
  • Publication number: 20110161265
    Abstract: The present invention generally relates to methods of rapidly and efficiently searching biologically-related data space. More specifically, the invention includes methods of identifying bio-molecules with desired properties, or which are most suitable for acquiring such properties, from complex bio-molecule libraries or sets of such libraries. The invention also provides methods of modeling sequence-activity relationships. As many of the methods are computer-implemented, the invention additionally provides digital systems and software for performing these methods.
    Type: Application
    Filed: December 28, 2010
    Publication date: June 30, 2011
    Applicant: CODEXIS MAYFLOWER HOLDING, LLC
    Inventors: Claes Gustafsson, Sridhar Govindarajan, Robin A. Emig, Richard John Fox, Ajoy K. Roy, Jeremy S. Minshull, S. Christopher Davis, Anthony R. Cox, Phillip A. Patten, Linda A. Castle, Daniel L. Siehl, Rebecca Lynne Gorton, Teddy Chen
  • Publication number: 20110160070
    Abstract: The present invention relates to methods of detecting differentially expressed protein expression indicative of COPD in a test sample. The detection of circulating levels of proteins within an identified COPD biomarker signature can aid in COPD diagnosis and disease monitoring, as well as in the prediction of responses to therapeutics. Evaluation of the biomarker signatures disclosed, or a subset of biomarkers thereof, provides a level of discrimination not found with individual markers.
    Type: Application
    Filed: February 27, 2009
    Publication date: June 30, 2011
    Applicant: Lineagen, Inc.
    Inventors: Francois Gervais, Viswanath Devanarayan
  • Publication number: 20110160071
    Abstract: Aspects of the invention relate to variant proteins and methods for designing and using the same. In some embodiments, the invention relates to methods for determining a functional variant of a protein that is restricted by one or more known legal rights, such as patent rights. Functional variants according to this invention are free of such restrictions.
    Type: Application
    Filed: June 3, 2009
    Publication date: June 30, 2011
    Inventors: Brian M. Baynes, Dasa Lipovsek, Shaun Lippow
  • Publication number: 20110150775
    Abstract: The present invention provides systems for developing and/or testing therapies for prenatal diseases and conditions including Down Syndrome. The present invention also provides diagnostic methods for Down Syndrome involving, in some embodiments, gene expression analyses of fetal RNA and/or detection of expression of particular genes involved in Down Syndrome. Also provided are microarrays and kits useful in prenatal diagnostic applications.
    Type: Application
    Filed: June 1, 2009
    Publication date: June 23, 2011
    Inventors: Donna Slonim, Kirby Johnson, Diana Bianchi
  • Publication number: 20110152166
    Abstract: The present patent application discloses a method of identifying or validating a compound that modulates the phosphorylation-dependent activity of a target protein or protein complex, where the target protein or protein complex activity is regulated by phosphorylation, as well as the use of identified compounds for the production of a pharmaceutical preparation especially for the treatment of cancer, insulin resistance and diabetes.
    Type: Application
    Filed: August 20, 2007
    Publication date: June 23, 2011
    Inventors: Ricardo M. Biondi, Mathias Engel, Frodin Morten
  • Publication number: 20110152109
    Abstract: Biological sample target classification, detection and selection methods are described, together with related arrays and oligonucleotide probes.
    Type: Application
    Filed: December 21, 2009
    Publication date: June 23, 2011
    Inventors: Shea N. Gardner, Crystal J. Jaing, Kevin S. McLoughlin, Thomas R. Slezak
  • Publication number: 20110142822
    Abstract: The present invention relates to co-crystals of cetuximab Fab in a complex with extracellular domain of EGFR, and structure coordinates obtained from such crystal. Such coordinates are useful for identifying mimetics that bind to the extracellular domain of EGFR. Such mimetics may for example inhibit binding of ligand to EGFR, inhibit activation of EGFR, and/or reduce proliferation of tumor cells.
    Type: Application
    Filed: June 14, 2005
    Publication date: June 16, 2011
    Inventors: Paul H. Kussie, Kathryn M. Ferguson
  • Publication number: 20110143952
    Abstract: A chromatographic device for use in multi-dimensional GC is described having a gas flow channel means having an inlet and an outlet, and including a first length of tube defining a first stage and a second length of tube defining a second stage; wherein each of the first length of tube defining a first stage and second length of tube defining a second stage is microfabricated in the plane of a planar substrate layer such that each length of tube comprises a bore defining a closed curve in cross section. A GC assembly further comprising modulator, injector and detector and a method of fabrication of device and assembly are described. A method of analysing multi-dimensional GC data is described.
    Type: Application
    Filed: July 3, 2009
    Publication date: June 16, 2011
    Inventors: Alastair Charles Lewis, Jacqueline Fiona Hamilton, Christopher Neil Rhodes
  • Publication number: 20110136686
    Abstract: Systems, methods, and other embodiments associated with sequence matching with no more than a number E errors are disclosed. A test fragment to be located within a target sequence with at most a number E errors is received. The test fragment is broken into E+1 test sub-fragments. If one test sub-fragment is located within the target sequence with no errors; a determination is made as to whether the other test sub-fragments are located within the target sequence adjacent to the one test sub-fragment with a total of at most E errors. If the other test sub-fragments are located within the target sequence adjacent the one test sub-fragment with at most E errors, a location of the test fragment within the target sequence is returned.
    Type: Application
    Filed: December 9, 2009
    Publication date: June 9, 2011
    Applicant: ORACLE INTERNATIONAL CORPORATION
    Inventors: Jayanta Banerjee, Seema Sundara
  • Publication number: 20110136675
    Abstract: A method of selecting a set of candidate polypeptides for a sample polypeptide that includes a first refining of a collection of candidate polypeptides from differences in mass of fragments of the sample polypeptide produced by mass spectrometry and a second refining of the collection of candidate polypeptides from the absolute mass of the sample polypeptide and the absolute mass of the fragments.
    Type: Application
    Filed: July 9, 2009
    Publication date: June 9, 2011
    Inventor: Neil L. Kelleher
  • Publication number: 20110124657
    Abstract: The present invention relates to compounds having pharmacological activity towards the 5-HT7 receptor; to a method for identifying them as 5-HT7 ligands, especially as agonists, by using a pharmacophore and a descriptor's profile filter; to pharmaceutical compositions comprising them; and to their use in therapy, in particular for the treatment and or prophylaxis of a disease in which 5-HT7 is involved, such as CNS disorders.
    Type: Application
    Filed: July 30, 2009
    Publication date: May 26, 2011
    Applicant: LABORATORIOS DEL DR. ESTEVE, S.A.
    Inventors: Rosalia Pascual-Ramon, H. Helmut Buschmann
  • Publication number: 20110124713
    Abstract: Embodiments of the present invention provide for SAM-II riboswitches and analogs thereof, and methods for using the same. In certain embodiments of the present invention, test compounds are identified that associate with SAM-II riboswitches. In other embodiments, test compounds found to associate with SAM II can be used to increase or decrease gene expression of Gram-negative bacterial organisms.
    Type: Application
    Filed: September 5, 2008
    Publication date: May 26, 2011
    Inventors: Robert Batey, Sunny Gilbert
  • Publication number: 20110124515
    Abstract: Methods and systems for assessing the probabilities of the expression of one or more traits in progeny are described.
    Type: Application
    Filed: October 20, 2010
    Publication date: May 26, 2011
    Inventor: Lee M. SILVER
  • Publication number: 20110124514
    Abstract: A set of known protein sequences associated with an organism is identified, wherein each known protein sequence comprises a plurality of ordered residues. A set of scores associated with a set of residues of the plurality of ordered residues is identified, wherein each score indicates a frequency of a residue in sequence context. A set of unique sub-sequences of the set of known protein sequences is identified. A plurality of protein signature residues is determined based on the set of scores associated with the set of residues and the set of unique sub-sequences.
    Type: Application
    Filed: March 19, 2008
    Publication date: May 26, 2011
    Applicant: LAWRENCE LIVERMORE NATIONAL SECURITY, LLC
    Inventors: Carol E. Zhou, Adam T. Zemla, Marisa W. Lam, Jason R. Smith, Elizabeth A. Vitalis, Shea N. Gardner, Thomas A. Kuczmarski, Thomas R. Slezak, Diane C. Roe, Joseph P. Schoeniger, Clinton L. Torres
  • Publication number: 20110112195
    Abstract: The severe acute respiratory syndrome virus (SARS) is a coronavirus that instigated regional epidemics in Canada and several Asian countries in 2003. The newly identified SARS coronavirus (SARS-CoV) can be transmitted among humans and cause severe or even fatal illnesses. As preventive vaccine development takes years to complete and adverse reactions have been reported to some veterinary coronaviral vaccines, anti-viral compounds must be relentlessly pursued. In this study, we analyzed the effect of aurintricarboxylic acid (ATA) on SARS-CoV replication in cell culture, and found that ATA could drastically inhibit SARS-CoV replication, with viral production being more than 1000 fold than that in the untreated control. ATA is also shown to be an effective anti-viral for several other viruses, including West Nile Virus and variola virus.
    Type: Application
    Filed: June 15, 2005
    Publication date: May 12, 2011
    Inventors: Runtao He, Anton Andonov, Jingxin Cao, Mike Drebot, Xueguang Li
  • Publication number: 20110105606
    Abstract: The present invention relates to the field of therapeutic methods, compositions and uses thereof, that affect, directly or indirectly, the behavior of LRP receptors. These compositions and methods result in the treatment of inflammatory, immunological and metabolic conditions. More particularly, the methods and compositions of the invention are directed to the identification of small molecules, drugs and/or pharmacological agents that affect the Wnt pathway by affecting normal complex formation among various signaling receptors, the LRP5 and LRP6 receptor, and related ligands.
    Type: Application
    Filed: August 7, 2008
    Publication date: May 5, 2011
    Inventors: Elazar Rabbani, Xiaofeng Li, Dakai Liu, Yazhou Zhang, Richard Jin, Riddhi Bhattacharyya, Wei Cheng, James J. Donegan
  • Publication number: 20110105345
    Abstract: The present application provides for various embodiments of methods for the analysis of high resolution melt (HRM) curve data; where statistical assay variations in melt curve data may result from system noise in an analysis system. Such system noise may arise from various sources, such as the thermal non-uniformity of a thermocycler block in a thermal cycler apparatus, a detection system, etc. Additionally, various methods for the analysis of HRM curve data may provide an identification of a sample without the need for a user inputted information.
    Type: Application
    Filed: August 2, 2010
    Publication date: May 5, 2011
    Applicant: LIFE TECHNOLOGIES CORPORATION
    Inventors: Francis T. Cheng, Chengyong Yang, Casey R. McFarland, Ying Wang
  • Publication number: 20110104204
    Abstract: The present invention provides a new class of peptides related to rapid replication and high human mortality, and their use in diagnosing, preventing and treating disease including vaccines and therapeutics for emerging viral diseases and methods of identifying the new class of peptides and related structures.
    Type: Application
    Filed: December 10, 2010
    Publication date: May 5, 2011
    Inventors: Samuel BOGOCH, Elenore S. BOGOCH, Samuel Winston BOGOCH, Anne-Elenore Bogoch BORSANYI
  • Publication number: 20110098186
    Abstract: Disclosed herein are compositions and methods relevant to a novel Drug Metabolism Reserve Physiotype to determine the metabolic capacity of a human individual. The Drug Metabolism Reserve Physiotype allows the determination of the innate metabolic capacity of the patient relevant to antidepressant and stimulant treatment and can be predicted and diagnosed simply from a blood sample. In the disclosed method, an individual is genotyped for a plurality of polymorphisms in a gene encoding CYP2C9, a gene encoding CYP2C19 and a gene encoding CYP2D6, and the genotypes are used to produce four novel indices, which relate to the metabolic capacity of the human individual.
    Type: Application
    Filed: October 22, 2010
    Publication date: April 28, 2011
    Applicant: GENOMAS, INC.
    Inventors: Gualberto Ruano, David Victor Villagra, Mohan Ranjit Kumar Kocherla, Andreas Windemuth, John W. Goethe
  • Publication number: 20110098238
    Abstract: A method, computer-readable medium, and system for identifying compounds from chemical libraries that can be used for the therapeutic treatment of a disease or used as lead compounds in a drug development program. In particular, information from homologous proteins is used to predict, for a target protein, molecular functions that can be used to screen libraries of compounds for individual compounds that are predicted to have high binding affinities for the target protein.
    Type: Application
    Filed: December 22, 2008
    Publication date: April 28, 2011
    Applicant: GEORGIA TECH RESEARCH CORPORATION
    Inventors: Jeffrey Skolnick, Michal Brylinski
  • Publication number: 20110092379
    Abstract: The invention discloses means and methods for genotyping an individual head of cattle. Individual's DNA is genotyped utilising the herein defined PCR SNaP-shot protocol. The protocol comprises two PCR steps where the first step (PCR1) includes adding primers (SEQ ID No. 1-30) and/or primers extended at their 5? end with a common 10 base motif (ACGTTGGATG) to the PCR1 reaction. The second step (PCR2) includes adding extension primers (SEQ ID No. 31-45), and/or primers adjacent to corresponding specific SNPs. Further steps include producing amplicons from a PCR1 mixture comprising template DNA and the first primer set to yield PCR1 products, using PCR1 products as templates to a set of extension primers to yield PCR2 products. Size and colour separation is achieved by adding tails of different lengths to the PCR2 primers. PCR2 products are separated and the results compared with SNP profiles from the databank to obtain matching.
    Type: Application
    Filed: June 14, 2009
    Publication date: April 21, 2011
    Applicant: BACTOCHEM LTD.
    Inventors: Aviv Cahana, Andrey Shirak, Baruch Karniol, Yitzchak Skalsky, Joel Ira Weller, Micha Ron, Eyal Seroussi
  • Publication number: 20110086767
    Abstract: Method for preparing the disaccharide ?-D-glucopyranosyl-(1?4)-2-N-acetyl-2-deoxy-?-D-glucopyranoside, comprising the step of using a mutant of a wild type glycoside hydrolase.
    Type: Application
    Filed: March 12, 2009
    Publication date: April 14, 2011
    Inventors: Laurence Mulard, Isabelle Andre, Elise Champion, Claire Moulis, Sandrine Morel, Pierre Monsan, Magali Remaud-Simeon, Karine Descroix
  • Publication number: 20110077401
    Abstract: The invention relates to compounds of formula 1, tautomers and salts thereof, wherein R1, R2, R3, R4, and R5 have the meanings indicated in the specification. These compounds are receptor tyrosine kinase EphB4 inhibitors useful for the treatment of angiogenesis dependent cancers and intraocular neovascular syndromes. The invention further relates to a method termed ALTA (anchor-based library tailoring) of selecting compounds from a large compound library for screening as EphB4 inhibitors by computational procedures.
    Type: Application
    Filed: January 23, 2009
    Publication date: March 31, 2011
    Applicant: UNIVERSITAET ZUERICH
    Inventors: Danzhi Huang, Peter Kolb, Karine Lafleur, Cristina Nevado, Amedeo Caflisch
  • Publication number: 20110071142
    Abstract: The present invention relates to methods of identifying small molecule candidate agents capable of modulating transcription factor function such that the function/expression of a target transcription factor and/or proteins downstream of this target protein comprises the screening of small molecule libraries using in silico high throughput docking for candidate small molecules/agents that are selectively identified for their ability to target and disrupt the transcription factor-DNA interface through unique transcription factor and/or DNA descriptors that are defined within a pharmacophore, and then testing/evaluating the candidate agents identified above through one or more in vitro assays for their ability to modulate transcription factor function including expression of this target protein and/or proteins that are downstream of the target transcription factor. The present invention also relates to various compounds described herein (e.g.
    Type: Application
    Filed: March 19, 2010
    Publication date: March 24, 2011
    Applicant: BETH ISRAEL DEACONESS MEDICAL CENTER
    Inventors: Peter Oettgen, Alan C. Rigby, Towia Libermann
  • Publication number: 20110065593
    Abstract: Methods and devices for diagnosing, monitoring, or determining a renal disorder in a mammal are described. In particular, methods and devices for diagnosing, monitoring, or determining a renal disorder using measured concentrations of a combination of three or more analytes in a test sample taken from the mammal are described.
    Type: Application
    Filed: August 6, 2010
    Publication date: March 17, 2011
    Applicant: Rules-Based Medicine, Inc.
    Inventors: Samuel T. Labrie, James P. Mapes, Ralph L. McDade, Dominic Eisinger, Karri L. Ballard, Michael D. Spain
  • Publication number: 20110065782
    Abstract: The present invention relates to methods of identifying compounds that inhibit the activation between a biomolecule, pharmaceutical compositions comprising such compounds, and methods of treating and/or to reducing the risk of Bacillus anthracis and Bordetella pertussis infection by administering such pharmaceutical compositions.
    Type: Application
    Filed: September 15, 2009
    Publication date: March 17, 2011
    Inventors: Thérèse Malliavin, Elodie Laine, Arnaud Blondel, Daniel Ladant, Johanna Karst, Sylvain Rault, Aurélien Lesnard
  • Publication number: 20110059853
    Abstract: For assessing classification annotations assigned to DNA sequences stored in a reference database, the DNA sequences are grouped by species using established classification schemes. Subsequently, a measure of distance between pairs of DNA sequences is determined by aligning the respective sequences and determining the measure of distance based on a score of similarity between the aligned DNA sequences. Determined are one or more centroid sequences which have the shortest aggregate measure of distance to the other DNA sequences in the respective group (species). Assigned to the DNA sequences as a quantitative confidence level for their classification annotations is in each case the measure of distance between the respective DNA sequence and the centroid sequence. The assessment and rating of the classification annotations with these confidence levels make it possible to provide to a user a quantitative indication of the degree of representativeness of a DNA sequence for a particular species.
    Type: Application
    Filed: November 29, 2007
    Publication date: March 10, 2011
    Applicant: SMARTGENE GMBH
    Inventors: Stefan Emler, Pierre-André Michel