DE102004016437A1 - Verfahren zur Erkennung von Signaturen in komplexen Genexpressionsprofilen - Google Patents
Verfahren zur Erkennung von Signaturen in komplexen Genexpressionsprofilen Download PDFInfo
- Publication number
- DE102004016437A1 DE102004016437A1 DE102004016437A DE102004016437A DE102004016437A1 DE 102004016437 A1 DE102004016437 A1 DE 102004016437A1 DE 102004016437 A DE102004016437 A DE 102004016437A DE 102004016437 A DE102004016437 A DE 102004016437A DE 102004016437 A1 DE102004016437 A1 DE 102004016437A1
- Authority
- DE
- Germany
- Prior art keywords
- expression profile
- expression profiles
- complex
- determining
- biological sample
- Prior art date
- Legal status (The legal status is an assumption and is not a legal conclusion. Google has not performed a legal analysis and makes no representation as to the accuracy of the status listed.)
- Ceased
Links
Classifications
-
- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
- C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
- C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
- C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
- C12Q1/6809—Methods for determination or identification of nucleic acids involving differential detection
Abstract
Die vorliegende Erfindung betrifft ein Verfahren zur Erkennung von Signaturen in komplexen Genexpressionsprofilen, das die Schritte umfaßt von: a) zur Verfügung stellen einer zu untersuchenden biologischen Probe, b) zur Verfügung stellen mindestens eines geeigneten Expressionsprofils, wobei das mindestens eine Expressionsprofil einen oder mehrere Marker umfaßt, die ausschließlich für das Expressionsprofil typisch sind, c) Bestimmen des komplexen Expressionsprofils der biologischen Probe, d) Bestimmen der quantitativen zellulären Zusammensetzung der biologischen Probe mittels der in den Schritten b) und c) bestimmten Expressionsprofile. Weiterhin kann das erfindungsgemäße Verfahren die Schritte von e) Berechnung eines virtuellen Signals, das aufgrund der bestimmten Zusammensetzung der Expressionsprofile erwartet wird, f) Berechnung der Differenz aus dem tatsächlichen gemessenen komplexen Expressionsprofil und dem virtuellen Signal und g) Bestimmen der quantitativen Zusammensetzung des komplexen Expressionsprofils auf Basis der ermittelten Differenzen umfassen. Die vorliegende Erfindung betrifft weiterhin die Anwendung des erfindungsgemäßen Verfahrens in der Diagnose, Prognose und/oder Verfolgung einer Erkrankung. Schließlich werden entsprechende Computersysteme, Computerprogramme, computerlesbare Datenträgermedien und Laborroboter oder Auswertegeräte für molekulare Nachweismethoden offenbart.
Priority Applications (4)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
DE102004016437A DE102004016437A1 (de) | 2004-04-04 | 2004-04-04 | Verfahren zur Erkennung von Signaturen in komplexen Genexpressionsprofilen |
PCT/EP2005/003520 WO2005095644A2 (de) | 2004-04-04 | 2005-04-04 | Verfahren zur erkennung von signaturen in komplexen genexpressionsprofilen |
EP05716523A EP1733050A2 (de) | 2004-04-04 | 2005-04-04 | Verfahren zur erkennung von signaturen in komplexen genexpressionsprofilen |
US11/547,040 US20080108509A1 (en) | 2004-04-04 | 2005-04-04 | Process for Recognizing Signatures in Complex Gene Expression Profiles |
Applications Claiming Priority (1)
Application Number | Priority Date | Filing Date | Title |
---|---|---|---|
DE102004016437A DE102004016437A1 (de) | 2004-04-04 | 2004-04-04 | Verfahren zur Erkennung von Signaturen in komplexen Genexpressionsprofilen |
Publications (1)
Publication Number | Publication Date |
---|---|
DE102004016437A1 true DE102004016437A1 (de) | 2005-10-20 |
Family
ID=34979107
Family Applications (1)
Application Number | Title | Priority Date | Filing Date |
---|---|---|---|
DE102004016437A Ceased DE102004016437A1 (de) | 2004-04-04 | 2004-04-04 | Verfahren zur Erkennung von Signaturen in komplexen Genexpressionsprofilen |
Country Status (4)
Country | Link |
---|---|
US (1) | US20080108509A1 (de) |
EP (1) | EP1733050A2 (de) |
DE (1) | DE102004016437A1 (de) |
WO (1) | WO2005095644A2 (de) |
Families Citing this family (43)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
WO2008066878A2 (en) * | 2006-11-29 | 2008-06-05 | University Of Vermont And State Agricultural College | Methods and products for diagnosing cancer |
US8445442B2 (en) | 2007-04-26 | 2013-05-21 | University Of Vermont And State Agricultural College | CCL18 and CCL3 methods and compositions for detecting and treating cancer |
GB0722582D0 (en) * | 2007-11-16 | 2007-12-27 | Secr Defence | Early detection of sepsis |
SG10201704689XA (en) | 2008-01-18 | 2017-07-28 | Harvard College | Methods of detecting signatures of disease or conditions in bodily fluids |
WO2010032816A1 (ja) * | 2008-09-19 | 2010-03-25 | 小野薬品工業株式会社 | 新規リゾホスファチジルセリン受容体 |
US9506119B2 (en) | 2008-11-07 | 2016-11-29 | Adaptive Biotechnologies Corp. | Method of sequence determination using sequence tags |
CN104195227B (zh) * | 2008-11-07 | 2017-04-12 | 适应生物技术公司 | 通过序列分析监测状况的方法 |
US8691510B2 (en) * | 2008-11-07 | 2014-04-08 | Sequenta, Inc. | Sequence analysis of complex amplicons |
US8628927B2 (en) | 2008-11-07 | 2014-01-14 | Sequenta, Inc. | Monitoring health and disease status using clonotype profiles |
US8748103B2 (en) * | 2008-11-07 | 2014-06-10 | Sequenta, Inc. | Monitoring health and disease status using clonotype profiles |
US9365901B2 (en) | 2008-11-07 | 2016-06-14 | Adaptive Biotechnologies Corp. | Monitoring immunoglobulin heavy chain evolution in B-cell acute lymphoblastic leukemia |
US9528160B2 (en) | 2008-11-07 | 2016-12-27 | Adaptive Biotechnolgies Corp. | Rare clonotypes and uses thereof |
EP2387627B1 (de) | 2009-01-15 | 2016-03-30 | Adaptive Biotechnologies Corporation | Adaptive immunitätsprofilierung und verfahren zur erzeugung monoklonaler antikörper |
EP2435580A2 (de) * | 2009-05-29 | 2012-04-04 | The Regents of the University of California | Mit toleranz bei transplantatempfängern assoziierte b-zellen-signatur |
RU2539032C2 (ru) | 2009-06-25 | 2015-01-10 | Фред Хатчинсон Кансэр Рисёч Сентер | Способ измерения искусственного иммунитета |
CA2772929A1 (en) | 2009-09-03 | 2011-03-11 | Genentech, Inc. | Methods for treating, diagnosing, and monitoring rheumatoid arthritis |
US9043160B1 (en) | 2009-11-09 | 2015-05-26 | Sequenta, Inc. | Method of determining clonotypes and clonotype profiles |
EP2385134A1 (de) * | 2010-05-07 | 2011-11-09 | Ludwig-Maximilians-Universität München | Risikoprognoseverfahren für chronische lymphatische Leukämie |
EP2596116A4 (de) * | 2010-07-23 | 2014-03-19 | Harvard College | Verfahren zur erkennung von autoimmun- oder autoimmunbezogenen erkrankungen oder leiden |
EP2596117B1 (de) * | 2010-07-23 | 2017-12-27 | President and Fellows of Harvard College | Verfahren zur erkennung von niergenbezogenen erkrankungen oder leiden |
WO2012012717A1 (en) | 2010-07-23 | 2012-01-26 | President And Fellows Of Harvard College | Methods of detecting prenatal or pregnancy-related diseases or conditions |
US10385475B2 (en) | 2011-09-12 | 2019-08-20 | Adaptive Biotechnologies Corp. | Random array sequencing of low-complexity libraries |
AU2012325791B2 (en) | 2011-10-21 | 2018-04-05 | Adaptive Biotechnologies Corporation | Quantification of adaptive immune cell genomes in a complex mixture of cells |
CA2858070C (en) | 2011-12-09 | 2018-07-10 | Adaptive Biotechnologies Corporation | Diagnosis of lymphoid malignancies and minimal residual disease detection |
US9499865B2 (en) | 2011-12-13 | 2016-11-22 | Adaptive Biotechnologies Corp. | Detection and measurement of tissue-infiltrating lymphocytes |
ES2662128T3 (es) | 2012-03-05 | 2018-04-05 | Adaptive Biotechnologies Corporation | Determinación de cadenas de receptor inmunitario emparejadas a partir de la frecuencia de subunidades coincidentes |
ES2582554T3 (es) | 2012-05-08 | 2016-09-13 | Adaptive Biotechnologies Corporation | Composiciones y método para medir y calibrar el sesgo de la amplificación en reacciones de PCR multiplexadas |
EP2875356A1 (de) * | 2012-07-23 | 2015-05-27 | INSERM - Institut National de la Santé et de la Recherche Médicale | Verfahren zur diagnose von sklerodermie |
CA2886647A1 (en) | 2012-10-01 | 2014-04-10 | Adaptive Biotechnologies Corporation | Immunocompetence assessment by adaptive immune receptor diversity and clonality characterization |
EP4202441A3 (de) | 2013-03-09 | 2023-07-26 | Immunis.AI, Inc. | Genexpressionsprofil in makrophagen zur diagnose von krebs |
WO2014170497A2 (en) * | 2013-04-19 | 2014-10-23 | Epiontis Gmbh | Method for identifying the quantitative cellular composition in a biological sample |
US9708657B2 (en) | 2013-07-01 | 2017-07-18 | Adaptive Biotechnologies Corp. | Method for generating clonotype profiles using sequence tags |
CA2941612A1 (en) | 2014-03-05 | 2015-09-11 | Adaptive Biotechnologies Corporation | Methods using randomer-containing synthetic molecules |
US10066265B2 (en) | 2014-04-01 | 2018-09-04 | Adaptive Biotechnologies Corp. | Determining antigen-specific t-cells |
ES2777529T3 (es) | 2014-04-17 | 2020-08-05 | Adaptive Biotechnologies Corp | Cuantificación de genomas de células inmunitarias adaptativas en una mezcla compleja de células |
US10392663B2 (en) | 2014-10-29 | 2019-08-27 | Adaptive Biotechnologies Corp. | Highly-multiplexed simultaneous detection of nucleic acids encoding paired adaptive immune receptor heterodimers from a large number of samples |
US10246701B2 (en) | 2014-11-14 | 2019-04-02 | Adaptive Biotechnologies Corp. | Multiplexed digital quantitation of rearranged lymphoid receptors in a complex mixture |
EP3224384A4 (de) | 2014-11-25 | 2018-04-18 | Adaptive Biotechnologies Corp. | Charakterisierung von adaptiver immunreaktion auf impfungen oder infektionen unter verwendung von immunrepertoiresequenzierung |
ES2858306T3 (es) | 2015-02-24 | 2021-09-30 | Adaptive Biotechnologies Corp | Método para determinar el estado de HLA mediante secuenciación del repertorio inmunitario |
WO2016161273A1 (en) | 2015-04-01 | 2016-10-06 | Adaptive Biotechnologies Corp. | Method of identifying human compatible t cell receptors specific for an antigenic target |
US10428325B1 (en) | 2016-09-21 | 2019-10-01 | Adaptive Biotechnologies Corporation | Identification of antigen-specific B cell receptors |
US11254980B1 (en) | 2017-11-29 | 2022-02-22 | Adaptive Biotechnologies Corporation | Methods of profiling targeted polynucleotides while mitigating sequencing depth requirements |
WO2023222927A2 (en) * | 2022-05-20 | 2023-11-23 | Novigenix Sa | Biomarkers for colorectal neoplasia |
Citations (3)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
WO2003072065A2 (en) * | 2002-02-28 | 2003-09-04 | Iconix Pharmaceuticals, Inc. | Drug signatures |
WO2003083141A1 (en) * | 2002-03-29 | 2003-10-09 | Arcturus Engineering, Inc. | Interpreting cytological specimens via molecular histological signatures |
WO2004005882A2 (en) * | 2001-06-18 | 2004-01-15 | Psychiatric Genomics, Inc. | Multi-parameter high throughput screening assays (mphts) |
Family Cites Families (3)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
US20030104394A1 (en) * | 2001-12-03 | 2003-06-05 | Xudong Dai | Method and system for gene expression profiling analysis utilizing frequency domain transformation |
DE10159404A1 (de) * | 2001-12-04 | 2003-06-26 | Arevia Gmbh | Verfahren zur Analyse von Gewebeproben |
EP1627083A2 (de) * | 2003-05-07 | 2006-02-22 | Agilent Technologies, Inc. | Systeme und verfahren zur bestimmung der zelltypzusammensetzung von gemischten zellpopulationen unter verwendung von genexpressions-signaturen |
-
2004
- 2004-04-04 DE DE102004016437A patent/DE102004016437A1/de not_active Ceased
-
2005
- 2005-04-04 EP EP05716523A patent/EP1733050A2/de not_active Withdrawn
- 2005-04-04 WO PCT/EP2005/003520 patent/WO2005095644A2/de not_active Application Discontinuation
- 2005-04-04 US US11/547,040 patent/US20080108509A1/en not_active Abandoned
Patent Citations (3)
Publication number | Priority date | Publication date | Assignee | Title |
---|---|---|---|---|
WO2004005882A2 (en) * | 2001-06-18 | 2004-01-15 | Psychiatric Genomics, Inc. | Multi-parameter high throughput screening assays (mphts) |
WO2003072065A2 (en) * | 2002-02-28 | 2003-09-04 | Iconix Pharmaceuticals, Inc. | Drug signatures |
WO2003083141A1 (en) * | 2002-03-29 | 2003-10-09 | Arcturus Engineering, Inc. | Interpreting cytological specimens via molecular histological signatures |
Non-Patent Citations (3)
Title |
---|
KIM, S. u.a.: Identification of combination gene sets for glioma classification. Mol. Cancer Ther. (2002) 1 (13) 1229-36 * |
TÜRECI, Ö. u.a.: Computational dissection of tissue contamination for identification of colon cancer-specific expression profiles. FASEB J. (2003) 17 (3) 376-85 * |
VENET, D. u.a.: Separation of samples into their constituents using gene expression data. Bioinfor-matics (2001) 17 (Suppl. 1) 279-87 * |
Also Published As
Publication number | Publication date |
---|---|
EP1733050A2 (de) | 2006-12-20 |
WO2005095644A3 (de) | 2006-04-13 |
WO2005095644A2 (de) | 2005-10-13 |
US20080108509A1 (en) | 2008-05-08 |
Similar Documents
Publication | Publication Date | Title |
---|---|---|
DE102004016437A1 (de) | Verfahren zur Erkennung von Signaturen in komplexen Genexpressionsprofilen | |
Staals et al. | Total MRI load of cerebral small vessel disease and cognitive ability in older people | |
Agbor-Enoh et al. | Applying rigor and reproducibility standards to assay donor-derived cell-free DNA as a non-invasive method for detection of acute rejection and graft injury after heart transplantation | |
López-Goñi et al. | Predictive validity of the EuropASI: Clinical diagnosis or composite scoring? | |
EP1715333A3 (de) | Verfahren zur Signalauslesung an einem gassensitiven Feldeffekttransistor | |
WO2011079938A3 (en) | System and method for determining the concentration of an analyte in a sample fluid | |
EP2770328A3 (de) | Verfahren zur Diagnose von Bauchspeicheldrüsenkrebs | |
JP2010525332A5 (de) | ||
WO2006126008A3 (en) | Improved immunoassay methods | |
BR112012019542A2 (pt) | "método para avaliar o estado renal em um indivíduo, medição de um ou mais biomarcadores, e, kit" | |
AT514311A5 (de) | Verfahren zum Identifizieren einer Teilmenge von Polynucleotiden aus einer dem Humangenom entsprechenden Ausgangsmenge von Polynucleotiden zur in vitro Bestimmung eines Schweregrads der Wirtsantwort eines Patienten | |
EP1215495A3 (de) | Verfahren zur Erhöhung der klinischen Spezifität bei der Detektion von Tumoren und ihren Vorstufen durch simultane Messung von mindestens zwei verschiedenen molekularen Markern | |
Chung et al. | Effect of renal function on serum cardiac troponin T—population and individual effects | |
CN106447040A (zh) | 基于异类多传感器数据融合的机械设备健康状态评估方法 | |
EP2671505A3 (de) | Verfahren und Analysegerät zur Messung einer Hornhaut | |
de Carvalho et al. | Sensitivity of MUP parameters in detecting change in early ALS | |
Franco et al. | Can a quantitative means be used to predict flow patterns: agreement between visual inspection vs. flow index derived flow patterns | |
NZ592819A (en) | Thyroid analyte detection and measurement | |
EP1215475A3 (de) | Verfahren zum Überprüfen der Bremse eines Elektromotors | |
CN103293250B (zh) | 糖尿病肾病诊断试剂盒及其应用 | |
EP1785889A3 (de) | Bestimmung der Reaktivität mittels EEG Analyse | |
Colon-Franco et al. | Validation of a hand-held point of care device for lactate in adult and pediatric patients using traditional and locally-smoothed median and maximum absolute difference curves | |
ATE550668T1 (de) | Verfahren zur identifizierung von patienten mit erhöhtem risiko für ein unerwünschtes herz- kreislauf-ereignis | |
DE602005013430D1 (de) | Verwendung von asc als marker für kolorektalkarzinome | |
DE60306328D1 (de) | Verfahren zur integrierten Integritätsbewertung und Analyse von Nukleinsäuren |
Legal Events
Date | Code | Title | Description |
---|---|---|---|
OP8 | Request for examination as to paragraph 44 patent law | ||
8131 | Rejection |