Patents by Inventor Pieter Jan Van Der Zaag

Pieter Jan Van Der Zaag 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: 10373705
    Abstract: A sequencer device generates basic nucleotide sequence data 30 comprising probe data 34 of a capture probe in the sequencer device 10 and a determined sequence of identifiers 32 of a fragment of nucleic acids captured by the probe. The sequencer device outputs enriched nucleotide sequence data 36 that is enriched with data comprising a reference to a sequence 38 that is expected for the fragment of nucleic acids.
    Type: Grant
    Filed: April 17, 2012
    Date of Patent: August 6, 2019
    Assignee: Koninklijke Philips N.V.
    Inventors: Pieter Jan Van Der Zaag, Ronny Amberg, Peter Beyerlein, Wilhelmus Franciscus Johannes Verhaegh, Rene Boettcher
  • Publication number: 20190213736
    Abstract: The present invention relates to an apparatus (10) for tubulus detection from a tissue biopsy. It is described to provide (210) a plurality of 2D images of a tissue biopsy, wherein each 2D image corresponds to a different depth position in the tissue biopsy, and wherein each 2D image comprises image data of the tissue biopsy. A measure of a local variation of intensity is determined (220) in the image data of the tissue biopsy in a region of at least one 2D image. At least part of a tubulus is located (230) in the region of the at least one 2D image on the basis of the determined measure of the local variation of intensity. The locating (230) involves determining (240) locations in the region of the at least one 2D image where the measure of the local variation in intensity is below a threshold. Data representative of the location of the at least part of the tubulus in the region of the at least one 2D image are output (250).
    Type: Application
    Filed: August 28, 2017
    Publication date: July 11, 2019
    Applicant: KONINKLIJKE PHILIPS N.V.
    Inventors: CHRISTIAAN VAREKAMP, PIETER JAN VAN DER ZAAG, MICHEL JOZEF AGNES ASSELMAN
  • Patent number: 10330598
    Abstract: The invention relates to an optical device (110) and a corresponding detection apparatus (100) that may for example be used for monitoring the replication of nucleotide sequences at a surface. In a preferred embodiment, the optical device (110) comprises a waveguide substrate (130) with a wiregrid (140) on a bottom surface (132), wherein apertures (141) of the wiregrid are in at least one direction (x) smaller than a characteristic wavelength (?) of input light (IL). Moreover, a diffractive structure (120) is disposed on the opposite surface (131) of the substrate (130) for coupling input light (IL) into the substrate (130) such that constructive interference occurs at the apertures (141). Thus evanescent waves can be generated with high efficiency in these apertures, allowing for example for a surface-specific excitation of fluorescence (FL) that can be sensed by a detector (160).
    Type: Grant
    Filed: November 25, 2014
    Date of Patent: June 25, 2019
    Assignee: KONINKLIJKE PHILIPS N.V.
    Inventors: Johannes Joseph Hubertina Barbara Schleipen, Reinhold Wimberger-Friedl, Pieter Jan Van Der Zaag, Hendrik Paul Urbach, Mitradeep Sarkar
  • Patent number: 10281453
    Abstract: The invention relates to an apparatus (100) and a method for the processing of single molecules, particularly for the sensing or sequencing of single-stranded DNA. A bottom layer (110) and an electrically conductive top layer (120) with a first and a second slit (111,121), respectively, are disposed on top of each other such that an aperture (A) is formed by the slits. The slits (111,121) are preferably perpendicular to each other. An electrical circuit (140) may be connected to the top layer (120), allowing to sense single molecules that pass through the aperture (A).
    Type: Grant
    Filed: September 25, 2012
    Date of Patent: May 7, 2019
    Assignee: Koninklijke Philips N.V.
    Inventors: Pieter Jan Van Der Zaag, Reinder Coehoorn, Falco Cornelius Marinus Jacobus Maria Van Delft
  • Publication number: 20190105024
    Abstract: The invention relates to a biopsy container, a biopsy device, an imaging system, and a method for processing images of a biopsy container. The biopsy container comprises a container orientation mark and an alignment mark. The container orientation mark is configured for a cooperation with a corresponding shaft orientation mark arranged on a tube shaft of a biopsy device to indicate a specific orientation of the biopsy container relative to the tube shaft. The alignment mark is configured for a registration of images of the biopsy container.
    Type: Application
    Filed: May 9, 2017
    Publication date: April 11, 2019
    Inventors: PIETER JAN VAN DER ZAAG, BERNARDUS HENDRIKUS WILHELMUS HENDRIKS, CHRISTIAN VAREKAMP
  • Publication number: 20180141038
    Abstract: The present invention relates to a sensor cartridge (100) comprising: a sample depot (10) which is configured to store a liquid sample; a first cartridge portion (20) comprising a first measurement chamber (22) which is coupled to the sample depot (10) and configured to receive a quantity of the liquid sample from the sample depot (10), wherein the first cartridge portion (20) is configured to measure a first analyte using a first modality on the quantity of the liquid sample and to provide a first analyte test signal; a cartridge portion (30-1) comprising a second measurement chamber (32-1) which is coupled to the first measurement chamber (20), which is configured to receive the quantity of the liquid sample from the first measurement chamber (22), wherein the cartridge portion (30) is configured to measure a second analyte using a second modality on the quantity of the liquid sample and to provide a second analyte test signal.
    Type: Application
    Filed: April 8, 2016
    Publication date: May 24, 2018
    Inventors: PIETER JAN VAN DER ZAAG, JACOBUS HERMANUS MARIA NEIJZEN, MENNO PRINS, JEROEN HANS NIEUWENHUIS, TOON HENDRIK EVERS, ALOYSIUS CORNELIS JOHANNES STROUCKEN
  • Publication number: 20180067052
    Abstract: The present invention relates to DNA sequencing with reagent cycling on the wiregrid. The sequencing approach suggested with which allows to use a single fluid with no washing steps. Based on strong optical confinement and of excitation light and of cleavage light, the sequencing reaction can be read-out without washing the surface. Stepwise sequencing is achieved by using nucleotides with optically cleavable blocking moieties. After read-out the built in nucleotide is deblocked by cleavage light through the same substrate. This ensures that only bound nucleotides will be unblocked.
    Type: Application
    Filed: November 8, 2017
    Publication date: March 8, 2018
    Inventors: Reinhold Wimberger-Friedl, Johan Lub, Pieter Jan Van Der Zaag
  • Patent number: 9823196
    Abstract: The present invention relates to DNA sequencing with reagent cycling on the wiregrid. The sequencing approach suggested with which allows to use a single fluid with no washing steps. Based on strong optical confinement and of excitation light and of cleavage light, the sequencing reaction can be read-out without washing the surface. Stepwise sequencing is achieved by using nucleotides with optically cleavable blocking moietys. After read-out the built in nucleotide is deblocked by cleavage light through the same substrate. This ensures that only bound nucleotides will be unblocked.
    Type: Grant
    Filed: January 9, 2013
    Date of Patent: November 21, 2017
    Assignee: KONINKLIJKE PHILIPS N.V.
    Inventors: Reinhold Wimberger-Friedl, Johan Lub, Pieter Jan Van Der Zaag
  • Publication number: 20170319186
    Abstract: A biopsy device for taking a 3D biopsy may comprise an outer sleeve, a hollow main shaft, a biopsy tube and a tube shaft. The hollow main shaft may have a distal end portion with a sideward facing notch, and the main shaft may be adapted to be accommodated within the outer sleeve. The biopsy tube may be provided for receiving cut and thus isolated tissue. A proximal end of the biopsy tube may be releasably attachable to a distal end of the tube shaft so that the biopsy tube is movable together with the tube shaft within the hollow main shaft between a proximal position in which the biopsy tube is not located in the notch, and a distal position in which the biopsy tube is located in the notch.
    Type: Application
    Filed: November 9, 2015
    Publication date: November 9, 2017
    Inventors: PIETER JAN VAN DER ZAAG, CORNELIUS ANTONIUS NICOLAAS MARIA VAN DER VLEUTEN, BERNARDUS HENDRIKUS WILHELMUS HENDRIKS, GERHARDUS WILHELMUS LUCASSEN, KLAAS CORNELIS JAN WIJBRANS
  • Patent number: 9568464
    Abstract: The invention relates to a method for manufacturing an apparatus for the processing of single molecules. According to this method, a self-assembling resist (155) is deposited on a processing layer (110, PL) and allowed to self-assemble into a pattern of two phases (155a, 155b). One of these phases (155a) is then selectively removed, and at least one aperture is generated in the processing layer (110, PL) through the mask of the remaining resist (155b). Thus apertures of small size can readily be produced that allow for the processing of single molecules (M), for example in DNA sequencing.
    Type: Grant
    Filed: March 14, 2013
    Date of Patent: February 14, 2017
    Assignee: Koninklijke Philips N.V.
    Inventors: Pieter Jan Van Der Zaag, Emiel Peeters, Roelof Koole, Falco Cornelius Marinus Jacobus Maria Van Delft
  • Publication number: 20170037468
    Abstract: The present invention relates to a device (100) and a method for optically controlling a chemical reaction in a reaction chamber (149) comprising a reagent fluid (114). In a preferred embodiment, the chemical reaction comprises a nucleic acid sequencing on a wiregrid. Based on strong optical confinement of excitation light (110) and of cleavage light (112), the sequencing reaction can be read-out. Stepwise sequencing is achieved by using nucleotides with optically cleavable blocking moieties. After read-out the built in nucleotide is deblocked by cleavage light through the same substrate. This ensures that only bound nucleotides will be unblocked. In order to avoid overheating by cleavage light, the reagent fluid is circulated along the surface of the substrate (101).
    Type: Application
    Filed: November 20, 2014
    Publication date: February 9, 2017
    Inventors: Pieter Jan VAN DER ZAAG, Anke PIERIK
  • Patent number: 9493822
    Abstract: The present invention relates to a device for the specific selection of target molecules, wherein immobilized capture molecules can be organized in a microarray in the form of spots or lines. In a further aspect the present invention relates to a method of specifically selecting target molecules in a reaction zone, as well as the use of such a device for specifically selecting target molecules, e.g. for target enrichment, or microarray based genome selection (MGS).
    Type: Grant
    Filed: August 26, 2010
    Date of Patent: November 15, 2016
    Assignee: KONINKLIJKE PHILIPS ELECTRONICS N.V.
    Inventors: Pieter Jan Van Der Zaag, Harma Feitsma, Jacob Marinus Jan Den Toonder, Reinhold Wimberger-Friedl
  • Publication number: 20160299077
    Abstract: The invention relates to an optical device (110) and a corresponding detection apparatus (100) that may for example be used for monitoring the replication of nucleotide sequences at a surface. In a preferred embodiment, the optical device (110) comprises a waveguide substrate (130) with a wiregrid (140) on a bottom surface (132), wherein apertures (141) of the wiregrid are in at least one direction (x) smaller than a characteristic wavelength (?) of input light (IL). Moreover, a diffractive structure (120) is disposed on the opposite surface (131) of the substrate (130) for coupling input light (IL) into the substrate (130) such that constructive interference occurs at the apertures (141). Thus evanescent waves can be generated with high efficiency in these apertures, allowing for example for a surface-specific excitation of fluorescence (FL) that can be sensed by a detector (160).
    Type: Application
    Filed: November 25, 2014
    Publication date: October 13, 2016
    Inventors: JOHANNES JOSEPH HUBERTINA BARBARA SCHLEIPEN, REINHOLD WIMBERGER-FRIEDL, PIETER JAN VAN DER ZAAG, HENDRIK PAUL URBACH, MITRADEEP SARKAR
  • Publication number: 20160195085
    Abstract: A microfluidic device (100) comprising at least one passive valve (PV, 120, 130), the passive valve being constituted by a sequence of a first carrier layer (CL 1) with an aperture providing a passage (P 1) for fluid flow, a first binding layer (BLI) with a first opening, a flexible layer (FL) with a through-hole (TH), a second binding layer (BL2) with a second opening, and a second carrier layer (CL2). Moreover, the flexible layer (FL) can move within a valve chamber (VC) constituted by the openings. Depending on the pressure difference across the passive valve (PV), the flexible layer (FL) can bend towards the first carrier layer (CLI) and close the aperture, while it opens the passage (P1) when bending in the opposite direction. Two of such properly oriented passive valves together with an intermediate active valve (AV) can constitute a one-stroke pump. A method for manufacturing such a fluidic device is also disclosed.
    Type: Application
    Filed: July 29, 2014
    Publication date: July 7, 2016
    Applicant: Koninklijke Philips N.V
    Inventors: Johannes Theodorus W. M. VAN EEMEREN, Irene Johanna Monica DOBBELAER-BOSBOOM, Pieter Jan VAN DER ZAAG
  • Publication number: 20150369772
    Abstract: The invention relates to a method and an apparatus (100) for the processing of nucleotide sequences. An apparatus (100) according to an embodiment of the invention comprises an array of electrodes (120a,120b, . . . ), wherein at least one nanoball (NB) comprising replications of a nucleotide sequence (1,2) of interest is attached to an electrode to which only one nanoball (NB) of that size can be attached at the same time. Thus a unique association of electrodes (120a,120b, . . . ) to nucleotide sequences (1,2) of interest can be achieved. The nanoballs (NB) are preferably produced by rolling circle amplification. Application of attractive and/or repulsive electric potentials to the electrodes (120a,120b, . . . ) can be used to control the attachment of nanoballs (NB). The measurement of changes in the capacitance of electrodes (120a,120b, . . .
    Type: Application
    Filed: January 23, 2014
    Publication date: December 24, 2015
    Inventors: ANJA VAN DE STOLPE, HARMA MARTINE FEITSMA, PIETER JAN VAN DER ZAAG, REINHOLD WIMBERGER-FRIEDL, JACOB MARINUS JAN DEN TOONDER, ANKE PIERIK, FREEK VAN HEMERT
  • Patent number: 9108220
    Abstract: According to an aspect of the present invention, a device for fragmenting molecules in a sample by ultrasound is provided. The device comprises a planar-shaped cartridge and a fragmentation instrument that has a vessel-like shape. By means of applying under-pressure in the fragmentation instrument the cartridge is pulled towards the fragmentation instrument and therefore spatially closes a fluid compartment that is comprised by the fragmentation instrument. Afterwards, an ultrasound treatment of the sample, which is comprised in a sample compartment of the cartridge, may be processed. A sealing layer is provided in between the cartridge and the fragmentation instrument in order to hold the fixation of the cartridge tightly and in order to provide for leakage prevention out of the fluid compartment.
    Type: Grant
    Filed: June 5, 2012
    Date of Patent: August 18, 2015
    Assignee: Koninklijke Philips N.V.
    Inventors: Cristian Bogdan Craus, Jacob Marinus Jan Den Toonder, Roel Penterman, Pieter Jan Van Der Zaag
  • Patent number: 9005896
    Abstract: The present invention describes methods for amplifying a target nucleic acid wherein target nucleic acids hybridize to capture probe nucleic acids which are immobilized to a support via their 5? end. The hybridization product is further extended with a polymerase to form a double stranded nucleic acid. To this double stranded nucleic acid, a hairpin nucleic acid is ligated. This ligation product is further amplified and sequenced.
    Type: Grant
    Filed: August 31, 2011
    Date of Patent: April 14, 2015
    Assignee: Koninklijke Philips N.V.
    Inventors: Harma Feitsma, Marlieke Overdijk, Anja Van De Stople, Pieter Jan Van Der Zaag
  • Publication number: 20150093750
    Abstract: The invention relates to a processing device (100) and a method for processing a medium in a processing chamber (121). The processing comprises the addition of magnetic particles (M) to the medium and the mixing of the medium by manipulating said magnetic particles with a time-variable magnetic field (B), particularly a partially oscillating or rotating field. The magnetic field (B) may be generated with a multipole magnetic field generator (110) comprising four subunits (111A,111B), each having a core (113A,113B) with a surrounding coil (112A,112B) and with a top surface (114A,114B), wherein all top surfaces of said subunits are preferably arranged in the same plane and wherein all cores are substantially parallel to each other.
    Type: Application
    Filed: April 23, 2013
    Publication date: April 2, 2015
    Inventors: Mikhail Mikhaylovich Ovsyanko, Pieter Jan Van Der Zaag, Harma Martine Feitsma, Reinhold Wimberger-Friedl, Theodorus Antonius Johannes Löring, Martinus Johannes Van Zelst
  • Publication number: 20150079585
    Abstract: The present invention relates to DNA sequencing with reagent cycling on the wiregrid. The sequencing approach suggested with which allows to use a single fluid with no washing steps. Based on strong optical confinement and of excitation light and of cleavage light, the sequencing reaction can be read-out without washing the surface. Stepwise sequencing is achieved by using nucleotides with optically cleavable blocking moietys. After read-out the built in nucleotide is deblocked by cleavage light through the same substrate. This ensures that only bound nucleotides will be unblocked.
    Type: Application
    Filed: January 9, 2013
    Publication date: March 19, 2015
    Inventors: Reinhold Wimberger-Friedl, Johan Lub, Pieter Jan Van Der Zaag
  • Publication number: 20150027980
    Abstract: The invention relates to a method for manufacturing an apparatus for the processing of single molecules. According to this method, a self-assembling resist (155) is deposited on a processing layer (110, PL) and allowed to self-assemble into a pattern of two phases (155a, 155b). One of these phases (155a) is then selectively removed, and at least one aperture is generated in the processing layer (110, PL) through the mask of the remaining resist (155b). Thus apertures of small size can readily be produced that allow for the processing of single molecules (M), for example in DNA sequencing.
    Type: Application
    Filed: March 14, 2013
    Publication date: January 29, 2015
    Applicant: KONINKLIJKE PHILIPS N.V.
    Inventors: Pieter Jan Van Der Zaag, Emiel Peeters, Roelof Koole, Falco Cornelius Marinus Jacobus Maria Van Delft