Patents by Inventor James G. Nadeau
James G. Nadeau 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).
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Publication number: 20070184512Abstract: Mass spectrometry techniques for determining the status of sepsis in an individual are provided. A biomarker profile resolved from a biological sample, taken from the individual, using a mass spectrometry technique is compared to a reference biomarker profile. A single such comparison classifies the individual as belonging to or not belonging to a reference population. The individual's biomarker profile and the reference biomarker profile comprise a plurality of ions each having a mass-to-charge ratio of about 100 Daltons to about 1000 Daltons. The plurality of ions can be detected by electrospray ionization mass spectrometry in positive mode. The comparison uses a decision rule, such as a classification tree, that determines the status of sepsis in the individual without requiring knowledge of the identity of the biomarkers in the biomarker profile from the individual and without requiring knowledge of the identity of the biomarkers in the reference biomarker profile.Type: ApplicationFiled: December 28, 2006Publication date: August 9, 2007Applicant: Becton, Dickinson and CompanyInventors: Richard M. Ivey, Thomas M. Gentle, Richard L. Moore, Michael L. Towns, Nicholas Bachur, Robert W. Rosenstein, James G. Nadeau, Paul E. Goldenbaum, Song Shi, Donald Copertino, James Garrett, Gregory Tice, Gary Siuzdak, Elizabeth Want, Zhouxin Shen
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Patent number: 7223536Abstract: The present invention provides methods for detecting and identifying sequence variations in a nucleic acid sequence of interest using a detector primer. It has been found that the reduced efficiency of primer extension by DNA polymerases when the 3? end of a primer does not hybridize perfectly with the target can be adapted for use as a means for distinguishing or identifying the nucleotide in the target which is at the site where the diagnostic mismatch between the detector primer and the target occurs. The detector primer hybridizes to the sequence of interest and is extended with polymerase. The efficiency of detector primer extension is detected as an indication of the presence and/or identity of the sequence variation in the target. The inventive methods make use of nucleotide mismatches at or near the 3? end of the detector primer to discriminate between the nucleotide sequence of interest and a second nucleotide sequence which may occur at that same site in the target.Type: GrantFiled: February 7, 2001Date of Patent: May 29, 2007Assignee: Becton, Dickinson and CompanyInventors: David J. Wright, Maria A. Milla, James G. Nadeau, G. Terrance Walker
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Publication number: 20040157242Abstract: The early prediction or diagnosis of sepsis advantageously allows for clinical intervention before the disease rapidly progresses beyond initial stages to the more severe stages, such as severe sepsis or septic shock, which are associated with high mortality. Early prediction or diagnosis is accomplished by comparing an individual's profile of biomarker expression to profiles obtained from one or more control, or reference, populations, which may include a population who develops sepsis. Recognition of features in the individual's biomarker profile that are characteristic of the onset of sepsis allows a clinician to diagnose the onset of sepsis from a bodily fluid isolated at the individual at a single point in time. The necessity of monitoring the patient over a period of time is, therefore, avoided, advantageously allowing clinical intervention before the onset of serious symptoms.Type: ApplicationFiled: November 12, 2003Publication date: August 12, 2004Applicant: Becton, Dickinson and CompanyInventors: Richard M. Ivey, Thomas M. Gentle, Richard L. Moore, Michael L. Towns, Nicholas Bachur, Robert W. Rosenstein, James G. Nadeau, Paul E. Goldenbaum, Song Shi, Donald Copertino, James Garrett, Gregory Tice, Gary Siuzdak, Elizabeth Want, Zhouxin Shen
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Patent number: 6743582Abstract: The invention employs an unlabeled signal primer comprising a 5′ adapter sequence for detection of nucleic acid target sequences. The detection system further comprises a reporter probe, the 3′ end of which hybridizes to the complement of the 5′ adapter sequence of the signal primer to produce a 5′ overhang. Polymerase is used to fill in the overhang and synthesize the complement of the 5′ overhang of the reporter probe. Synthesis of the reporter probe complement is detected, either directly or indirectly, as an indication of the presence of the target.Type: GrantFiled: June 28, 2001Date of Patent: June 1, 2004Assignee: Becton, Dickinson and CompanyInventors: James G. Nadeau, Tobin J. Hellyer
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Publication number: 20040096917Abstract: The early prediction or diagnosis of sepsis advantageously allows for clinical intervention before the disease rapidly progresses beyond initial stages to the more severe stages, such as severe sepsis or septic shock, which are associated with high mortality. Early prediction or diagnosis is accomplished by comparing an individual's profile of biomarker expression to profiles obtained from one or more control, or reference, populations, which may include a population that develops sepsis. Recognition of features in the individual's biomarker profile that are characteristic of the onset of sepsis allows a clinician to diagnose the onset of sepsis from a bodily fluid isolated from the individual at a single point in time. The necessity of monitoring the patient over a period of time is, therefore, avoided, advantageously allowing clinical intervention before the onset of serious symptoms of sepsis.Type: ApplicationFiled: November 12, 2003Publication date: May 20, 2004Applicant: Becton, Dickinson and CompanyInventors: Richard M. Ivey, Thomas M. Gentle, Richard L. Moore, Michael L. Towns, Nicholas Bachur, Robert W. Rosenstein, James G. Nadeau, Paul E. Goldenbaum, Song Shi, Donald Copertino, James Garrett, Gregory Tice
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Patent number: 6656680Abstract: The invention employs an unlabeled signal primer comprising a 5′ adapter sequence for detection of nucleic acid target sequences. The detection system further comprises a reporter probe, the 3′ end of which hybridizes to the complement of the 5′ adapter sequence of the signal primer to produce a 5′ overhang. Polymerase is used to fill in the overhang and synthesize the complement of the 5′ overhang of the reporter probe. Synthesis of the reporter probe complement is detected, either directly or indirectly, as an indication of the presence of the target.Type: GrantFiled: June 28, 2001Date of Patent: December 2, 2003Assignee: Becton, Dickinson and CompanyInventors: James G. Nadeau, Tobin J. Hellyer
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Publication number: 20030165913Abstract: The invention employs an unlabeled signal primer comprising a 5′ adapter sequence for detection of variations in nucleic acid target sequences. The detection system further comprises a reporter probe, the 3′ end of which hybridizes to the complement of the 5′ adapter sequence of the signal primer to produce a 5′ overhang. Polymerase is used to fill in the overhang and synthesize the complement of the 5′ overhang of the reporter probe. Synthesis of the reporter probe complement is detected, either directly or indirectly, as an indication of the presence of the target.Type: ApplicationFiled: July 26, 2002Publication date: September 4, 2003Inventors: Sha-Sha Wang, Keith Thornton, James G. Nadeau, Tobin J. Hellyer
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Publication number: 20030148303Abstract: Signal primers are employed for detection of nucleic acid target sequences by fluorescence quenching mechanisms. The signal primer comprises a first and a second oligonucleotide and is partially single-stranded and partially double-stranded. In the presence of target, the second oligonucleotide of the signal primer is displaced from the first and a conformational change in a reporter probe occurs which changes the distance between the members of a donor/quencher dye pair linked to the reporter probe. The change in proximity between the dyes causes an increase or a decrease in fluorescence quenching, which is detected as an indication of the presence of the target sequence.Type: ApplicationFiled: June 5, 2002Publication date: August 7, 2003Inventors: James G. Nadeau, C. Preston Linn, J. Bruce Pitner, Cheryl H. Dean, G. Terrance Walker
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Publication number: 20020102574Abstract: The invention employs an unlabeled signal primer comprising a 5′ adapter sequence for detection of nucleic acid target sequences. The detection system further comprises a reporter probe, the 3′ end of which hybridizes to the complement of the 5′ adapter sequence of the signal primer to produce a 5′ overhang. Polymerase is used to fill in the overhang and synthesize the complement of the 5′ overhang of the reporter probe. Synthesis of the reporter probe complement is detected, either directly or indirectly, as an indication of the presence of the target.Type: ApplicationFiled: June 28, 2001Publication date: August 1, 2002Inventors: James G. Nadeau, Tobin J. Hellyer
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Publication number: 20020094527Abstract: The invention employs an unlabeled signal primer comprising a 5′ adapter sequence for detection of nucleic acid target sequences. The detection system further comprises a reporter probe, the 3′ end of which hybridizes to the complement of the 5′ adapter sequence of the signal primer to produce a 5′ overhang. Polymerase is used to fill in the overhang and synthesize the complement of the 5′ overhang of the reporter probe. Synthesis of the reporter probe complement is detected, either directly or indirectly, as an indication of the presence of the target.Type: ApplicationFiled: June 28, 2001Publication date: July 18, 2002Inventors: James G. Nadeau, Tobin J. Hellyer
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Publication number: 20020086306Abstract: The invention employs an unlabeled signal primer comprising a 5′ adapter sequence for detection of nucleic acid target sequences. The detection system further comprises a reporter probe, the 3′ end of which hybridizes to the complement of the 5′ adapter sequence of the signal primer to produce a 5′ overhang. Polymerase is used to fill in the overhang and synthesize the complement of the 5′ overhang of the reporter probe. Synthesis of the reporter probe complement is detected, either directly or indirectly, as an indication of the presence of the target.Type: ApplicationFiled: June 28, 2001Publication date: July 4, 2002Inventors: James G. Nadeau, Tobin J. Hellyer
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Patent number: 6379888Abstract: Signal primers are employed for detection of nucleic acid target sequences by fluorescence quenching mechanisms. The signal primer comprises a first and a second oligonucleotide and is partially single-stranded and partially double-stranded. In the presence of target, the second oligonucleotide of the signal primer is displaced from the first and a conformational change in a reporter probe occurs which changes the distance between the members of a donor/quencher dye pair linked to the reporter probe. The change in proximity between the dyes causes an increase or a decrease in fluorescence quenching, which is detected as an indication of the presence of the target sequence.Type: GrantFiled: September 27, 1999Date of Patent: April 30, 2002Assignee: Becton, Dickinson and CompanyInventors: James G. Nadeau, C. Preston Linn, J. Bruce Pitner, Cheryl H. Dean, G. Terrance Walker
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Publication number: 20020025519Abstract: The present invention provides methods for detecting and identifying sequence variations in a nucleic acid sequence of interest using a detector primer. It has been found that the reduced efficiency of primer extension by DNA polymerases when the 3′ end of a primer does not hybridize perfectly with the target can be adapted for use as a means for distinguishing or identifying the nucleotide in the target which is at the site where the diagnostic mismatch between the detector primer and the target occurs. The detector primer hybridizes to the sequence of interest and is extended with polymerase. The efficiency of detector primer extension is detected as an indication of the presence and/or identity of the sequence variation in the target. The inventive methods make use of nucleotide mismatches at or near the 3′ end of the detector primer to discriminate between the nucleotide sequence of interest and a second nucleotide sequence which may occur at that same site in the target.Type: ApplicationFiled: June 17, 1999Publication date: February 28, 2002Inventors: DAVID J. WRIGHT, MARIA A. MILLA, JAMES G. NADEAU, G. TERRANCE WALKER
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Patent number: 6316200Abstract: The invention employs an unlabeled signal primer comprising a 5′ adapter sequence for detection of nucleic acid target sequences. The detection system further comprises a reporter probe, the 3′ end of which hybridizes to the complement of the 5′ adapter sequence of the signal primer to produce a 5′ overhang. Polymerase is used to fill in the overhang and synthesize the complement of the 5′ overhang of the reporter probe. Synthesis of the reporter probe complement is detected, either directly or indirectly, as an indication of the presence of the target.Type: GrantFiled: June 8, 2000Date of Patent: November 13, 2001Assignee: Becton, Dickinson and CompanyInventors: James G. Nadeau, Tobin J. Hellyer
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Publication number: 20010039334Abstract: The present invention provides methods for detecting and identifying sequence variations in a nucleic acid sequence of interest using a detector primer. It has been found that the reduced efficiency of primer extension by DNA polymerases when the 3′ end of a primer does not hybridize perfectly with the target can be adapted for use as a means for distinguishing or identifying the nucleotide in the target which is at the site where the diagnostic mismatch between the detector primer and the target occurs. The detector primer hybridizes to the sequence of interest and is extended with polymerase. The efficiency of detector primer extension is detected as an indication of the presence and/or identity of the sequence variation in the target. The inventive methods make use of nucleotide mismatches at or near the 3′ end of the detector primer to discriminate between the nucleotide sequence of interest and a second nucleotide sequence which may occur at that same site in the target.Type: ApplicationFiled: February 7, 2001Publication date: November 8, 2001Inventors: David J. Wright, Maria A. Milla, James G. Nadeau, G. Terrance Walker
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Publication number: 20010009761Abstract: The present invention provides methods for detecting and identifying sequence variations in a nucleic acid sequence of interest using a detector primer. It has been found that the reduced efficiency of primer extension by DNA polymerases when the 3′ end of a primer does not hybridize perfectly with the target can be adapted for use as a means for distinguishing or identifying the nucleotide in the target which is at the site where the diagnostic mismatch between the detector primer and the target occurs. The detector primer hybridizes to the sequence of interest and is extended with polymerase. The efficiency of detector primer extension is detected as an indication of the presence and/or identity of the sequence variation in the target. The inventive methods make use of nucleotide mismatches at or near the 3′ end of the detector primer to discriminate between the nucleotide sequence of interest and a second nucleotide sequence which may occur at that same site in the target.Type: ApplicationFiled: February 7, 2001Publication date: July 26, 2001Inventors: David J. Wright, Maria A. Milla, James G. Nadeau, G. Terrance Walker
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Patent number: 6261784Abstract: Detector nucleic acids are employed for detection of nucleic acid target sequences by fluorescence quenching mechanisms. The detector nucleic acid comprises at least two oligonucleotides and is partially single-stranded and partially double-stranded. One of the two dyes of a donor/acceptor dye pair is linked to the first oligonucleotide and the other is linked to a second oligonucleotide such that they are in close spatial proximity when the first and second oligonucleotides are base-paired and donor fluorescence is quenched. A single second oligonucleotide may be hybridized to the first oligonucleotide or multiple second oligonucleotides may be hybridized to the first oligonucleotide and to each other, forming a junction structure comprising multiple donor/acceptor dye pairs. The detector oligonucleotide retains its partially single-stranded and partially double-stranded conformation in the absence of target.Type: GrantFiled: June 22, 2000Date of Patent: July 17, 2001Assignee: Becton, Dickinson and CompanyInventors: James G. Nadeau, Helen V. Hsieh, J. Bruce Pitner, C. Preston Linn
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Patent number: 6130047Abstract: Detector nucleic acids are employed for detection of nucleic acid target sequences by fluorescence quenching mechanisms. The detector nucleic acid comprises at least two oligonucleotides and is partially single-stranded and partially double-stranded. One of the two dyes of a donor/acceptor dye pair is linked to the first oligonucleotide and the other is linked to a second oligonucleotide such that they are in close spatial proximity when the first and second oligonucleotides are base-paired and donor fluorescence is quenched. A single second oligonucleotide may be hybridized to the first oligonucleotide or multiple second oligonucleotides may be hybridized to the first oligonucleotide and to each other, forming a junction structure comprising multiple donor/acceptor dye pairs. The detector oligonucleotide retains its partially single-stranded and partially double-stranded conformation in the absence of target.Type: GrantFiled: January 22, 1999Date of Patent: October 10, 2000Assignee: Beckon, Dickson and CompanyInventors: James G. Nadeau, Helen V. Hsieh, J. Bruce Pitner, C. Preston Linn
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Patent number: 6066458Abstract: Methods for determining quantities of nucleic acid sequences in samples undergoing amplification utilize amplification ratio estimates (R*) in operations to accurately perform absolute quantitation even when amplification factors for the target and control sequences undergoing amplification are different, time dependent or vary as a function of starting concentrations of nucleic acid sequences. These operations also take into account conversion efficiencies associated with the conversion of probes upon generation of target or control amplicons, but do not require the explicit calculation of such efficiencies. The operations also recognize that a preferred R* should be determined based on a preferred statistical criterion to improve quantitation. In addition, the use of standard samples having known starting concentrations of target and control sequences therein may enable accurate absolute quantitation without the explicit calculation of amplification ratio estimates.Type: GrantFiled: May 18, 1998Date of Patent: May 23, 2000Assignee: Becton, Dickinson and CompanyInventors: Perry D. Haaland, James G. Nadeau, Colleen M. Nycz, Cheryl H. Dean, Catherine A. Spargo
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Patent number: 6054279Abstract: Single-stranded signal primers are modified by linkage to two dyes which form a donor/acceptor dye pair. The two dyes are positioned in sufficiently close spatial proximity on the signal primer that the fluorescence of the first dye is quenched by the second dye. The signal primer may further comprise a restriction endonuclease recognition site (RERS) between the two dyes. As the signal primer is initially single-stranded and remains single-stranded in the absence of target, the restriction endonuclease recognition site is not cleavable or nickable by the restriction endonuclease. In the presence of target, however, signal primer and the restriction endonuclease recognition site are rendered double-stranded and cleavable or nickable by the restriction endonuclease. Cleavage or nicking separates the two dyes and a change in fluorescence due to decreased quenching is detected as an indication of the presence of the target sequence or of target sequence amplification.Type: GrantFiled: July 20, 1998Date of Patent: April 25, 2000Assignee: Becton Dickinson and CompanyInventors: James G. Nadeau, J. Bruce Pitner, James L. Schram, C. Preston Linn, Glenn P. Vonk, G. Terrance Walker