U.S. patent application number 10/685992 was filed with the patent office on 2004-10-28 for screening markers and methods for neurodegenerative disorders.
This patent application is currently assigned to Elan Pharmaceuticals, Inc.. Invention is credited to Bard, Frederique, McConlogue, Lisa C., Messersmith, Elizabeth.
Application Number | 20040213739 10/685992 |
Document ID | / |
Family ID | 22715260 |
Filed Date | 2004-10-28 |
United States Patent
Application |
20040213739 |
Kind Code |
A1 |
McConlogue, Lisa C. ; et
al. |
October 28, 2004 |
Screening markers and methods for neurodegenerative disorders
Abstract
The invention includes identification of specific markers, the
elevation of which in central nervous tissue is associated with
Alzheimer's Disease. The invention also includes improved assay
methods for selecting compounds useful in reducing or preventing
onset of the pathology associated with Alzheimer's Disease.
Inventors: |
McConlogue, Lisa C.;
(Burlingame, CA) ; Messersmith, Elizabeth; (El
Cerrito, CA) ; Bard, Frederique; (Pacifica,
CA) |
Correspondence
Address: |
TOWNSEND AND TOWNSEND AND CREW, LLP
TWO EMBARCADERO CENTER
EIGHTH FLOOR
SAN FRANCISCO
CA
94111-3834
US
|
Assignee: |
Elan Pharmaceuticals, Inc.
South San Francisco
CA
|
Family ID: |
22715260 |
Appl. No.: |
10/685992 |
Filed: |
October 14, 2003 |
Related U.S. Patent Documents
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Application
Number |
Filing Date |
Patent Number |
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10685992 |
Oct 14, 2003 |
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09823549 |
Mar 30, 2001 |
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6664442 |
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60193847 |
Mar 30, 2000 |
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Current U.S.
Class: |
424/9.2 ;
800/12 |
Current CPC
Class: |
C12Q 1/6883 20130101;
C12Q 2600/158 20130101; A01K 2227/105 20130101; A01K 2267/0312
20130101; A01K 2217/05 20130101 |
Class at
Publication: |
424/009.2 ;
800/012 |
International
Class: |
A61K 049/00; A01K
067/00 |
Claims
1-54. (canceled)
55. A method of monitoring efficacy of a test compound or drug in
reducing amyloid plaque burden in the central nervous system of a
non-human mammalian test animal, comprising measuring in the
central nervous system of a test animal treated with said test
compound or drug an amount of an efficacy marker selected from the
group consisting of MHC II .alpha. chain, MHC II (Ia) light chain,
CD86, MCP-1, CCR5, CCR2, GRO(=KC), MIP2, IL-10, IL-12 p40,
IFN-.gamma., CD3.epsilon., CD4, IgG-1, .kappa. (light chain), and
GFAP, and determining that said test compound or drug is
efficacious if the amount of said efficacy marker present in said
test animal central nervous system is significantly different than
an amount of said efficacy marker present in the central nervous
system of a control animal.
56. The method of claim 55, wherein said test animal is genetically
pre-disposed to brain amyloid plaque formation.
57. The method of claim 56, wherein said test animal is a PDAPP
mouse.
58. The method of claim 56, wherein said amount of said efficacy
marker in the test animal is significantly higher than said amount
of marker present in said control animal.
59. The method of claim 55, wherein said measuring is carried out
in tissue derived from the brain of said animal.
60. An efficacy marker profile for measuring efficacy of a test
compound in reducing amyloid burden in a mammalian subject,
comprising at least two molecules selected from the group
consisting of MHC II .alpha. chain, MHC II (Ia) light chain, CD86,
MCP-1, CCR5, CCR2, GRO(=KC), MIP2, IL-10, IL-12 p40, IFN-.gamma.,
CD3.epsilon., CD4, IgG-1, .kappa. (light chain) and GFAP.
61. The efficacy marker profile of claim 60, wherein said test
compound produces an immunological response in said subject.
Description
CROSS-REFERENCE TO RELATED APPLICATIONS
[0001] This application claims the benefit of U.S. patent
application Ser. No. 60/193,847, filed Mar. 30, 2000, which is
incorporated by reference herein in its entirety.
FIELD OF THE INVENTION
[0002] The invention relates to screening markers and assays useful
in testing for therapeutics to treat neurodegenerative disorders,
particularly certain neurodegenerative diseases having an
inflammatory component, such as Alzheimer's Disease (AD).
BACKGROUND OF THE INVENTION
[0003] Progressive neurodegeneration of the central nervous system
is characteristic of a number of debilitating diseases, including
Alzheimer's Disease. In its progressive stages, Alzheimer's Disease
(AD) is characterized by the presence of amyloid plaques and
neurofibrillatory tangles in the brain, neuronal degeneration,
inflammatory responses, vascular damage and dementia (Hardy and
Higgins (1992) Science 256: 184).
[0004] Transgenic animals, such as the PDAPP mouse can be used both
to study the progression of the disease as well as to test
compounds and/or intervention strategies directed at retarding
progression of the disease (e.g., U.S. Pat. No. 5,811,633).
However, the number of compounds that can be readily tested in such
animal models has been limited to some degree by their dependence
on histological analysis; hence, it may be impractical to use such
models for high volume or high throughput screening of potential
therapeutic compounds.
[0005] Recently, the term "Alzheimer's Disease-like inflammation"
has been applied to a pathology that is characterized by the
presence of amyloid plaques composed of amyloid .beta.-peptide (a
40-42 amino acid fragment of the P-amyloid precursor protein
(APP)), astrocytosis and microgliosis. Various types of plaques
have been characterized including neuritic plaques, which are
associated with cognitive decline in AD. Neuritic plaques are
associated with abnormal dystrophic neurites and inflammatory
responses including activated microglia and astrocytes. In
addition, while a number of cytokines have been reported to be
elevated in AD, there has been no definitive etiological
correlation between elevation of specific marker proteins and
development of the disease state. That is, although a number of
inflammatory cytokines have been reported to be elevated in the
brains and CSF of Alzheimer's patients, it has not been clear
whether such cytokines are contributory or incidental to the
disease process. However, retrospective studies suggest that use of
anti-inflammatory drugs is associated with delayed onset of AD.
[0006] It is the discovery of the present invention that the
appearance of certain protein or polynucleotide markers, including
certain inflammatory cell-related markers and cytokines, described
herein, is coincident with the onset of morphohistological
correlates of Alzheimer's Disease in a standard experimental model
of the disease, a transgenic mouse which carries a mutant form of
APP, for example, the PDAPP mouse. This discovery enables the
development of faster, more quantitative drug screening assays for
therapeutics for prevention or treatment of AD. Related to this
discovery is the finding, also described herein, that the same
markers are elevated in response to certain insults to nervous
tissue. This finding forms the basis for new, simpler and faster
animal models for Alzheimer's Disease and more particularly, for in
vivo screening assays for drugs effective in preventing or reducing
the symptoms of AD.
[0007] These and other objects and features of the invention will
become more fully apparent when the following detailed description
of the invention is read in conjunction with the accompanying
drawings.
BRIEF DESCRIPTION OF THE FIGURES
[0008] FIGS. 1A-1D show levels of mRNA for TNF.alpha. (1A),
MIP1.alpha. (1B), GFAP (1C) and IL1.beta. (1C) measured in
transgenic (closed symbols) and control (open symbols) mice at 2,
10, 12 and 18 months of age, where mRNA levels are normalized to
GAPDH levels;
[0009] FIGS. 2A-2C show levels of MRNA for MHC 11a (2A), CD86 (2B),
and MHC II Li (2C) measured in transgenic (closed symbols) and
control (open symbols) mice at 2, 12, and 18 months of age, where
mRNA levels are normalized to GAPDH mRNA levels;
[0010] FIGS. 3A and 3B show a time course tracing of rat body
temperatures before and after bilateral carotid occlusion (BCO), as
indicated, in a rat where temperature readings (.degree. C.) were
taken every five minutes (3A), and gross motor activity tracing
based on activity readings measured in units/5 minutes (3B);
[0011] FIGS. 4A and 4B a time course tracing of rat body
temperatures before and after sham operation for BCO, as indicated,
in a rat where temperature readings of (.degree. C.) were taken
every five minutes (4A), and gross motor activity tracing based on
activity readings measured in units/5 minutes (4B);
[0012] FIGS. 5A and 5B show levels of mRNA for MIP1.alpha. (5A) and
TNF.alpha.(5B) in BCO-operated mice (n=10), sham-operated mice
(n=9), radiotransmitter-implanted mice (n=9) and untreated mice
(n=6) 24 hours post reperfusion, where BCO-operated mice are
indicated by open bars;
[0013] FIGS. 6A-6D levels of mRNA for GFAP (6A) IL1.beta. (6B) MHC
II.alpha. (6C) and CD86 (6D) in individual BCO-operated mice
(n=10), sham-operated mice (n=9), radiotransmitter-implanted mice
(n=9) and untreated mice (n=6) 24 hours post reperfusion, where
BCO-operated mice are indicated by open bars; and
[0014] FIGS. 7A and 7B show induction of MHC II (7A) and GFAP (7B)
on the left (4L) denervated side compared to the control right (4R)
side after rat facial nerve axotomy (RFNA) where tissues from four
animals were pooled for each analysis.
DETAILED DESCRIPTION OF THE INVENTION
[0015] I. Definitions
[0016] Unless otherwise indicated, all terms used herein have the
same meanings as they would to one skilled in the art of the
present invention.
[0017] As used herein, the term "marker" refers to any detectable
biological correlate of a neurodegenerative disease characterized
by AD-like inflammation, particularly Alzheimer's Disease.
Preferred markers are protein markers which can be measured by
detection of the protein, any specific antigenic site on the
protein, a coding sequence specific to the protein, such as
messenger RNA (mRNA) or cDNA derived from such mRNA. Exemplary
methods for detecting and measuring markers are provided in the
Examples.
[0018] The term "Alzheimer's Disease", abbreviated herein as "AD"
refers to a neurodegenerative disease of the central nervous system
characterized by amyloid plaques and neurofibrillatory tangles
concentrated in certain vulnerable regions of the brain such as the
hippocampus and cortex. Various types of plaques are found in AD,
including, but not limited to neuritic plaques associated with
abnormal dystrophic neurites. Also characteristic of the disease is
the presence of an inflammatory response in the CNS, including
activated microglia and astrocytes.
[0019] The term "IL1.beta." refers to a member of the interleukin
family of macrophage-derived cytokines. The IL1.beta. polypeptide
is known to be a stimulator of inflammatory responses in the
periphery. As used herein, the term may refer to the polypeptide or
its specific DNA or RNA coding sequence, which polypeptide or
coding sequence may be derived from any biological source or
tissue.
[0020] The term "TNF.alpha." refers to Tumor Necrosis Factor
.alpha., a macrophage-derived cytokine that is also known as a
mediator of inflammation in the periphery. As used herein, the term
may refer to the polypeptide or its specific DNA or RNA coding
sequence, which polypeptide or coding sequence may be derived from
any biological source or tissue.
[0021] The term "MIP1.alpha." refers to Macrophage Inflammatory
Protein .alpha., a macrophage derived chemokine which is chemotatic
for monocytes, eosinophils, basophils and lymphocytes. As used
herein, the term may refer to the polypeptide or its specific DNA
or RNA coding sequence, which polypeptide or coding sequence may be
derived from any biological source or tissue.
[0022] The term "GFAP" refers to Glial Fibrillar Associated
Protein, an astrocyte-associated protein which is associated with
activation of astrocytes in response to wounding, inflammation or
neuronal damage. As used herein, the term may refer to the
polypeptide or its specific DNA or RNA coding sequence, which
polypeptide or coding sequence may be derived from any biological
source or tissue.
[0023] The term "CD86" refers to an antigen which is present on
activated cells of the monocyte lineage and which is involved in
presentation of antigen during activation of T-lymphocytes.
[0024] The term "MHC II" refers to Major Histocompatibility Complex
II, a protein antigen which is present on activated microglia and
is involved in presentation of antigens to T-lymphocytes. "MHC
II.alpha." refers to the alpha chain of the complex.
[0025] The term "MHC II Li" refers to the invariant chain of MHC
II, which is co-regulated with MHC II.
[0026] The term "fractalkine" refers to a member of the CX3C family
of chemokines which contains both a chemokine and a mucin
domain.
[0027] The term "CX3CR1" refers to a receptor for fractalkine,
which has been localized to T-lymphocytes, natural killer (NK)
cells, and macrophages.
[0028] II. AD Markers
[0029] The present invention is based on the discovery that certain
marker proteins and/or their specific coding sequences are induced
in a manner that correlates in time with the appearance of
morphological symptoms of Alzheimer's Disease (AD) in transgenic
mice that carry the gene for a mutated form of APP. These mice,
which include but are not limited to PDAPP mice as disclosed in
U.S. Pat. No. 5,811,633, incorporated herein by reference, display
prominent AD pathology, and provide an animal model of AD. Such
transgenic mice represent the first animal model of AD that
displays the same type of chronic, low level and local CNS
inflammation that is characteristic of AD. By about 12 months of
age, these mice begin to exhibit CNS AD-associated inflammatory
pathology in hippocampus and cortex, brain regions which also
display prominent AD pathology. This pathology, which includes
AD-type amyloid plaques, neurofibrillatory tangles and activated
microglia and astrocytes, progresses over time.
[0030] More specifically, it is the discovery of the present
invention that specific marker proteins are detectable by
non-histological means in PDAPP mice as well as in other, newly
recognized models of AD inflammation, as described herein. That is,
CD86, MHC II and MHC II Li, previously identified as
microglia-specific markers, appear in 12-month old homozygous PDAPP
mice. In addition, the cytokine markers IL-1.beta., MIP-1.alpha.,
and TNF.alpha. and the astrocyte-specific marker GFAP are also
induced in homozygous PDAPP mice in a manner that parallels
appearance of activated microglia and astrocytes and amyloid
plaques in mice. Certain markers, which may be the same as, a
subset of, or different than the markers referred to above, are
indicative of the efficacy of a given drug or treatment regimen in
reducing plaque burden. These markers, referred to herein as
"efficacy markers" are also identified by the methods disclosed
herein. Examples of such efficacy markers are provided.
[0031] Part A of this section describes the identities and forms of
the various AD markers which form the basis of the present
invention. Part B provides guidance for methods of detecting such
markers. Section II describes additional animal models suitable for
measuring the appearance of such AD-specific markers and discloses
the utility of such models for more rapid screening of compounds
for treatment of Alzheimer's Disease.
[0032] A. Identification of AD-specific Markers
[0033] Co-pending, co-owned U.S. patent application U.S. Ser. No.
09/149,718 filed September 8, 1998, incorporated herein by
reference, describes a number of proteins involved in
neuroinflammatory responses which can serve as markers for AD-like
inflammation.
[0034] Experiments carried out in support of the present invention
demonstrate the correlation between the appearance or induction of
certain of these markers and onset of Alzheimer's Disease
symptomology in the PDAPP mouse. More specifically, these include
several cytokine-related messages (IL-1.beta., MIP1.alpha.,
TNF.alpha.), an astrocyte specific marker (GFAP), as well as
activated monocyte-associated antigen CD86 and activated
microglia-associated antigens MHC II.alpha. and MHC II Li.
[0035] As described in more detail in Part IIB, in experiments
carried out in support of the present invention, AD markers were
detected using quantitative PCR methods that allow for detection of
"rare" mRNAs encoding the markers. Exemplary assay conditions and
primer/probe sequences specific for each of the foregoing markers
are provided in Example 1 and summarized in Tables 2 and 3 therein.
It is understood that such assays are provided by way of example
only and are not meant to limit the scope of the invention; any
method capable of detecting any form of the marker, such as the
protein, including antigenic portion(s) thereof, or any form of
coding sequence (e.g., mRNA, cDNA, DNA) thereof, may be used in
carrying out the methods of the invention.
[0036] However, preferred methods of detection will include those
methods capable of detecting relatively low quantities of the
marker with a degree of accuracy that allows comparison and
differentiation among samples. Preferably, such methods will
provide quantitative data for comparison test and control
samples.
[0037] In further support of the invention, expression of markers
TNF.alpha., MIP1.alpha. GFAP and IL1.beta. was measured in tissues
derived from homozygous PDAPP mice at 2, 10, 12 and 18 months of
age by RT-PCR (reverse transcription polymerase chain reaction;
e.g., White, B. A., Ed., PCR Cloning Protocols, Humana Press,
Totoua, N.J., 1997) analysis of mRNA derived from hippocampal brain
tissue, as described in Example 1. In these studies, sample values
were normalized with reference to internal GDAPH
(glyceraldehyde-3-phosphate dehydrogenase). Results from these
experiments are shown in FIGS. 1A-1D. As shown, induction of
expression of the markers in the transgenic animal follows the
time-course of inflammation established by histological analysis of
brain samples from the mice. GFAP and IL1-.beta. were demonstrated
to be induced between 10 and 12 months of age, around the time that
activated astrocytes appear, according to histological evaluation.
TNF.alpha. and MIP1.alpha. were induced somewhat earlier, at 10
months. These results correlate the appearance of these markers to
the ongoing plaque associated inflammation measured by conventional
histological methods, such as those described in co-owned,
co-pending U.S. patent application U.S. Ser. No. 09/149,718,
incorporated herein by reference. Osteopontin is also elevated in
PDAPP mice compared to non-transgenic mice (see Example 5).
[0038] Quantitative PCR assays were also developed for three
microglia specific markers (murine MHC II.alpha. chain, MHC II Li
chain and CD86). Assay conditions and primer/probes are shown in
Tables 2 and 3 in Example 1. As illustrated, markers MHC II.alpha.
and CD86 were significantly elevated in the hippocampus of 12 and
18 month old homozygous PDAPP mice compared to non-transgenic
control animals (FIGS. 2A and 2B), while MHC II Li was
significantly elevated in 12 month old homozygous PDAPP mice as
compared to control animals (FIG. 2C). These data are summarized in
Table 1, below. The use of the quantitative PCR assays, or other
similar assays, has the advantage over previously used
histochemical analysis that it can be adapted to high thoroughput
screening assays, such as QT-PCR, for rapid and analysis of
multiple samples in a manner that is much less labor-intensive.
1 TABLE 1 2 month 12 month 18 month MHC IIa NTg 0.090 0.028 0.064
Tg 0.091 0.078 0.175 MHCII Li NTg 0.014 0.020 0.112 Tg 0.013 0.055
0.130 CD86 NTg 0.379 0.368 0.484 Tg 0.461 1.054 1.419
[0039] The foregoing studies validate the use of the various
inflammatory markers of the invention in chronicling the onset of
AD pathology. Additional studies are described in Examples 4 and 5.
As discussed in Section II, below, these markers can be used as
efficacy indicators in screening assays for compounds for use in
reducing, eliminating or inhibiting development of AD.
[0040] B. Quantitative Assays for Detecting AD-specific Markers
[0041] Marker proteins or their coding sequences can be detected
according to any of a number of methods known in the art, including
but not limited to detection of protein antigens using antigen
specific antibodies in conjunction with appropriate reporter
systems, detection of coding regions using specific hybridization
probes, and the like. Particularly preferred methods include
quantitative PCR, such as RT-PCR, which detects and permits
analysis of mRNA transcripts present in brain tissue. Exemplary
quantitative PCR methods are described in Example 1.
[0042] Briefly, RNA was extracted from tissue samples according to
standard methods known in the art, such as using a S.N.A.P..RTM.
RNA extraction kit (Invitrogen, Carlsbad, Calif.). Marker analysis
was carried out by PCR, using a Perkin Elmer ABI Prism 7700
Sequence Detection System. (Perkin Elmer, Foster City, Calif.). PCR
reactions were set up according to standard methods known in the
art. More specifically, forward and reverse primers were selected
based on the known RNA coding sequences for the various markers.
Exemplary primers are described in Table 2. Detailed methods are
found in Example 1. Other quantitative methods of detection can be
used to determine the concentration of specific marker present in a
particular tissue sample. For example, where concentrations of
marker are high enough to be detectable by protein localization
techniques, the concentration of expressed protein can be measured
directly, such as using antibodies directed to the marker in
standard immunoassay techniques.
[0043] III. In vivo Assay Systems
[0044] According to an important feature of the invention, markers
described and validated as described above are particularly useful
in the context of animal models of Alzheimer's Disease. Currently,
the potential in vivo screening of compounds for efficacy in the
treatment of AD-type inflammation is limited to studies conducted
in the PDAPP mouse and measurement of morphohistological correlates
of AD, such as plaque burden, neuritic dystrophy,
immunohistochemical detected activated microglia and astrocytes.
Such methods may not be optimal for high throughput drug screening,
since they are labor intensive and since it takes the PDAPP mouse
about 12 months to develop AD-type inflammatory pathology, and the
availability of PDAPP mice is often limited.
[0045] Therefore, it is also desirable to have a more rapid animal
model of CNS. Criteria for such models include the following:
First, the majority of inflammatory markers identified as altered
in the transgenic (PDAPP) mouse should also be altered in the
surrogate model. Second, the inflammation should be localized to a
site within the CNS, ideally to regions of the brain that are
vulnerable in AD, such as the hippocampus or cortex. Third, the
model should have a significant time advantage over the PDAPP mouse
for screening compounds.
[0046] Experiments carried out in support of the present invention
have revealed that many of the above-described markers for AD are
elevated in two short-term animal models: the Bilateral Common
Carotid Occlusion (BCO) model of global ischemia (mouse) and the
Rat Facial Nerve Axotomy (RFNA) model of neurodegeneration. Both
these models produce localized neuronal damage and inflammatory
responses over a relatively short period of time. Accordingly, both
of these models can be used as a surrogate for the transgenic mouse
model known in the art and described, for example in co-pending
U.S. patent application U.S. Ser. No. 09/149,718, incorporated
herein by reference.
[0047] A. Bilateral Common Carotid Occlusion (BCO) Model of Global
Ischemia
[0048] Models of global ischemia which produce a transient arrest
of cerebral blood flow are generally utilized to evaluate neuronal
loss and inflammatory responses due to cerebral ischemia (stroke)
or myocardial infarction. Thus neuronal loss, as evaluated by
histopathology, is first localized to hippocampus sectors CA1 and
CA3, followed by damage to the neocortex. C57BL/6 mice exhibit
enhanced susceptibility to global cerebral ischemic injury because
they possess a poorly defined posterior communicating artery (Fujii
et al., 1997). In addition, ischemic damage in this model manifests
itself as a drop in body temperature and rise in gross motor
activity during the first twenty hours post reperfusion (Mileson,
et al., 1991, Gerhardt, et al., 1988). Thus, the end points of body
temperature and gross motor activity can be used to evaluate the
induction of the ischemia.
[0049] In experiments carries out in support of the present
invention, detailed in Example 2, the time course and change in
mRNA expression levels were measured in the hippocampus for some of
the markers of the present invention after induction of global
ischemia in C57BL/6 mice. Measurements of body temperature and
gross motor activity were taken and evaluated for the individual
animals. The data shown herein were obtained 24 or 48 hours
post-ischemia.
[0050] a. Telemetry Measurements
[0051] Body temperature and gross motor activity were used as
indicators of ischemic damage. These two parameters were measured
via a radiotransmitter implanted in the test mouse abdomen two days
prior to the BCO procedure. Once baseline measurements were
obtained, another surgical procedure was performed to isolate the
common carotid arteries. A clip was placed on each of the arteries
for 15 minutes, while body temperature was maintained at 37.degree.
C. This surgically induced, controlled occlusion of blood flow
while maintaining a body temperature of 37.degree. C. is what is
associated with consistent reproducible global ischemia. At the end
of the occlusion period, the clips were removed and the carotid
arteries were visually inspected to confirm that blood flow had
been re-established. The mouse was returned to its cage for
continuous monitoring of body temperature and motor activity
following the ischemic episode. Typical body temperature and gross
motor activity readouts are shown below for data collected from
individual BCO and sham animals (FIGS. 3 and 4). The decrease in
body temperature and increase in gross motor activity in the BCO
operated animal were noticeably different to those in the sham
animal.
[0052] b. Quantitative PCR Measurements
[0053] After a defined period of reperfusion, the animals were
euthanized, perfused with 0.9% saline and the hippocampi from both
hemispheres were removed. RNA was extracted from the tissue samples
and quantitative PCR used to evaluate message levels of RNAs
encoding inflammatory markers. Quantitative PCR was conducted
according to the protocols detailed in Example 1 and described in
Section I, above. As shown in FIGS. 5 and 6, a subset of
inflammatory markers, previously identified as elevated in the
PDAPP mouse, were also elevated in the hippocampus 24 hours after
global ischemia.
[0054] The BCO model of global ischemia has satisfied many of the
criteria set forth for a model of AD-type inflammation. As shown in
FIGS. 5(A,B) and 6(A-D), many of the AD markers described herein
were up-regulated within 24 hours after induction of ischemia. Thus
the target of the inflammatory response in BCO includes a site
within the CNS, the hippocampus. Furthermore, 24 hours after BCO,
all the markers that are up-regulated in the PDAPP mouse, are also
up-regulated in BCO, with the exception of one marker, MHC II.
[0055] B. Rat Facial Nerve Axotomy Model Axotomy (transection) of
the peripheral facial nerve in experimental models results in
degeneration and ultimate regeneration of motorneurons in cranial
nerve VII.
[0056] This model was tested and validated as a relatively quick
and reproducible means for inducing CNS inflammation, as evidenced
by the induction of some of the inflammatory markers described in
Section II, above. As discussed below, the two markers tested in
this model (GFAP and MHC II I.alpha.) were shown to be elevated in
the denervated region (side contralateral to lesion).
[0057] Methods for performing the axotomy procedure, isolating
facial nuclei and extracting RNA for quantitative analysis are
described in Example 3.
[0058] Quantitative PCR assays were developed for two rat
inflammatory markers (rat MHC II and rat GFAP), and control rat
GAPDH. Assay conditions and primer/probes are shown in Tables 1 and
2. From these studies it was found that rat spleen polyA+RNA could
be used as a standard for MHC II a chain, and total RNA extracted
from a rat mixed brain culture as standard for GFAP. Using these
RNA standards, relative expression levels of MHC II, and GFAP
transcripts were measured in facial nuclei ipsilateral to the
lesion (4L), as well as in the contralateral control nuclei (4R).
The levels of the control RNA marker, GAPDH, did not change when
normalized to total RNA so that marker data can be either
normalized to total RNA or to GAPDH. FIGS. 7A and 7B show that MHC
II.alpha. and GFAP mRNAs, normalized to total RNA, are elevated in
the ipsilateral facial nucleus nerve axotomy model. These data were
obtained from RNA extracted from pooled nuclei dissected from 4
rats. Hence, the data represents an average difference among 4
animals.
[0059] IV. Utility
[0060] Markers of the present invention can be used in conjunction
with a number of assay formats designed to evaluate the efficacy of
candidate compounds for potential therapeutic use in Alzheimer's
Disease. Guidance for setting up and evaluating such assays is
found with reference to the description and working examples
described herein. More specifically, the invention includes use of
the described markers to monitor the efficacy of compounds tested
in various animal or cellular models of Alzheimer's Disease. Based
on the disclosures of the present invention, persons skilled in the
art will be able to set up an appropriate in vitro or in vivo assay
system and monitor the system for induction of the various markers
described herein (e.g., IL1.beta., TNF.alpha., MIP-1.alpha., GFAP,
MHC II.alpha., CD86, fractalkine, CX3CR1) as well as other markers
found to be associated with AD-like inflammation, such as markers
described in co-pending, co-owned U.S. patent application U.S. Ser.
No. 09/149,718, incorporated herein by reference.
[0061] Described herein are two exemplary animal models that
illustrate the versatility of the present invention. These systems,
previously used for assessing the effects of various forms of acute
neuronal insult, now find utility in the practice of the present
invention in the context of providing a relatively short-term assay
for screening compounds having the potential for treating
Alzheimer's Disease and related chronic neurodegenerative diseases
characterized by AD-like inflammation.
[0062] Using the mouse bilateral carotid artery occlusion (BCO)
model by way of example, depending upon the particular drug
administration paradigm determined by the investigator, a test
compound is administered to test animal either before or after the
occlusion period. The animal is subjected to BCO, then given time
to recover as described. The animal is then sacrificed (for example
24 or 48 hours or longer following occlusion), critical brain
regions isolated and processed for marker detection. While as few
as one marker determination may be made, it is preferred that at
least two or more markers be measured. In accordance with the six
specific markers exemplified herein, a significant reduction in the
induced levels of such markers, compared to the induced levels
observed in control animals, is indicative of drug efficacy in the
model.
[0063] By way of example, mice are divided into control (BCO
surgery) and test (test drug+BCO surgery) groups. Additional mice
may be sham-operated (prepared and incisions made for surgery,
including isolation of carotid arteries from surrounding tissue)
and unoperated for additional controls. Test compounds are
administered to selected animals, according to a pre-determined
paradigm that takes into consideration the number of animals needed
in each group in order to make meaningful (statistically
significant) comparasions. Such administering can be carried out by
any of a number of modes well known in the art, including but not
limited to intravenous, intraventricular, intrathecal, epidural,
intramuscular, nasal insufflation, and the like. Preferred methods
of administration will be those that provide consistently high
levels of test compound to the affected brain regions, particularly
the cortex and hippocampus. For example, compound may be
administered intra-arterially to the carotid arteries just prior to
or following ligation; alternatively, compound may be infused
intraventricularly before, during and/or after ligation of the
carotid arteries, in order to assess the therapeutic window of
opportunity.
[0064] Markers will be measured in tissues taken from the test
animal subjects, especially brain cortical and hippocampal tissues.
Comparison between groups will be carried out, using standard
statistical means of evaluation known in the art. A compound will
be deemed of therapeutic potential, if it reduces the amount of
induction relative to control values of one or more of the markers
described above. That is, control ligated animals will be expected
to show an increase (induction) of one or more of the markers. In
contrast, successfully treated animals will be expected to show
lower values, more in line with those observed with non-operated
controls.
[0065] Following drug screening, it is understood that candidate
compounds will require further testing, for example, for toxicity,
prior to regulatory approval and control.
[0066] Also described herein is identification, using PDAPP mice,
of "efficacy markers." Table 4 lists a number of molecules, some of
which (e.g., CD86) overlap with the markers described above, which
have been shown to be modulated during plaque clearance in PDAPP
mice. That is, in experiments carried out in support of the present
invention, the brains of control and AN1792 drug-treated PDAPP mice
were examined at age 17 months for plaque levels and levels of a
variety of candidate markers, using the techniques described
herein. Levels of the molecules listed in Table 4 were found to be
significantly elevated in treated mice and to correlate with plaque
clearance. Such efficacy markers are particularly useful in drug
screening using afflicted mice, such as PDAPP mice, or other animal
models of neurodegeneration or amyloidosis, including Alzheimer's
disease. Such biochemical markers greatly reduce the time needed
for processing samples, compared to standard histological
techniques, as well as reduce the amount of brain sample needed for
analysis. Various immunological formats (e.g., ELISA, RIA), as well
as PCR-based assays can be devised to provide the efficacy
information for drug screening. Such biochemical analysis also
provides a foundation for setting up high throughput screening
assays, according to methods known in the art.
[0067] In addition, the methods described herein are readily
adapted to diagnostic assay development. For example, many of the
markers described are found on peripheral cells, as well as in the
brain tissue samples described herein. The markers described herein
are tested for modulation in a test peripheral tissue (such as a
lymphocyte) and, if modulated in a manner that correlates with the
observed modulation in brain studies, may serve as surrogate
markers in the drug screening studies (in test animals) or in drug
efficacy studies (in animals or in human clinical trials).
[0068] The following examples illustrate, but in no way are
intended to limit the present invention.
MATERIALS AND METHODS
Example 1 Quantitative PCR
[0069] A. Isolation of RNA
[0070] RNA was isolated from brain tissues using the S.N.A.P..TM.
Total RNA Isolation Kit (Invitrogen, Carlsbad, Calif.) according to
manufacturer's instructions, with the following modifications: the
tissue was homogenized for 20 seconds using a rotor-stator
homogenizer (Fisher Scientific). The DNA digestion step was
repeated a second time following isopropanol precipitation.
[0071] B. Quantitative RT-PCR
[0072] Quantitative PCR assays were run on a Perkin Elmer 7700
Sequencer using methods and materials provided by Perkin Elmer
(Applied Biosystems Division, Foster City, Calif.). Primers and
fluorescent probes were obtained from Perkin Elmer; the sequences
and concentrations of primers and probes used for the various
assays are listed in Table 1 below. PCR reactions were set up using
approximately 300 nM concentrations of each of the forward and
reverse primers, 100 nM probe and RNA extracted from the tissue of
interest (20 ng). Each reaction also included a standard RNA for
comparison. Data were normalized to total RNA or to GAPDH. Standard
curves were run using standard RNA prepared from the appropriate
tissue (e.g., brain total RNA). Sample results were normalized to
the amount of RNA measured by OD and or control message (e.g.,
GAPDH).
2TABLE 2 assay conditions inflammatory markers assay primer F.
primer R probe UNKN RNA STND RNA DILUTION rMHC IIa 300 nM 300 nM
100 nM 20 nG/wells Spleen RNA 4 ng/well 1/3 rGFAP 300 nM 300 nM 100
nM 2 ng/well MBC RNA 16 ng/well 1/3 rGAPDH 300 nM 300 nM 100 nM 2
ng/well MBC RNA 20 ng/well 1/3 mGAPDH 200 nM 200 nM 100 nM 20
ng/well mouse brain ctx + hip)40 ng/well 1/3 mMHC II Li 900 nM 900
nM 100 nM 20 ng/well " 1/3 mMHC II a 300 nM 300 nM 100 nM 20
ng/well " 1/3 mCDB6 300 nM 300 nM 100 nM 20 ng/well " 1/3 1/3
mMIP1a 300 nM 300 nM 100 nM 20 ng/well " 1/3 mIL1 300 nM 300 nM 100
nM 20 ng/well " 1/3 mGFAP 300 nM 300 nM 100 nM 20 ng/well " 1/3
mTNFa 300 nM 300 nM 100 nM 20 ng/well " 1/3
[0073]
3TABLE 3 qtPCR primers and probes, inflammatory efficacy markers
Genbank assay # forward primer reverse primer probe murine Name:
MoGapdh251F Name: MoGapdh363R Name: MoGapdh272T GAPDH Sequence:
GGGAAGCCCATCACCAT Sequence: GCCTTCTCCATGGTGGT Sequence:
CAGGAGCGAGACCCCACTA CTT GAA ACATCAAATG murine Name: mGFAP-420F
Name: mGFAP-489R Name: mGFAP-443T GFAP Sequence: CTGGAGGTGGAGAGGGAC
Sequence: TGGTTTCATCTTGGAGCTT Sequence: TGCACAGGACCTCGGCAC AA CTG
CCT murine Name: mMip1a128F Name: mMip1a229R Name: mMip1a172T
MIP1.mu. Sequence: CAAGTCTTCTCAGCGCCAT Sequence: GGTTTCAAAATAGTCAAC
Sequence: CTGCTTCTCCTACAGCCGG ATG GATGAATTG AAGATTCCAC murine Name:
mTNFa-420F Name: mTNFa-492R Name: mTNFa-442T TNF-.alpha. Sequence:
CTGGAGGTGGAGAGGGA Sequence: GGTTGGTTTCATCTTGGAG Sequence:
TTGCACAGGACCTCGGCA CAA CTT CCC murine Name: mIL1B-2F Name:
mIL1B-114R Name: mIL1B-30T HI1-.beta. Sequence: GCAGGGTTCGAGGCCTAA
Sequence: GTGGCATTTCACAGTTGAG Sequence: TGGGATCCTCTCCAGCCAA TAG
TTCA GCTTCC murine Name: mCD86 #2-250F Name: mCD86 #2-321R Name:
mCD86 #2-267T CD86 Sequence: GGCCGCACGAGCTTTG Sequence:
CGAGCCCATGTCCTTGA Sequence: CAGGAACAACTGGACTCTA TCT CGACTTCACAATG
murine Name: mMHC II(Ia),Li Name: mMHC II(Ia),Ii Name: mMHC
II(Ia),Ii MHCII Ii chain-418F chain-479R chain-433TR Sequence:
CGCGGGCGCCATAA Sequence: ACTCCCAGGCCAGAAGAT Sequence:
CTTCCATGTCCAGTGGCTC AGG ACTGCA murine Name: mMHC II(Ia), Name: mMHC
II(Ia), Name: mMHC II(Ia), MHCII.alpha. a chain-294F a chain-386R a
chain-335T Sequence: CCACCCCAGCTACCAAT Sequence:
CCACAAAGCAGATGAGGGT Sequence: CCCAAGTCCCCTGTGCTGC GAG GTT TGG rat
M17701 Name: R.GAPDH-750F Name: R.GAPDH-820R Name: R.GAPDH-781T
GAPDH Sequence: TGCCAAGTATGATGACATC Sequence: AGCCCAGGATGCCCTTTA
Sequence: AAGCAGGCGGCCGAGGGC AAGAA GT rat GFAP z48978 Name:
R.GFAP-2099F Name: R.GFAP-2165R Name: R.GFAP-2122T Sequence:
CTCAATGACCGCTTTGCTA Sequence: CCAGCGCCTTGTTTTGCT Sequence:
CATCGAGAAGGTCCGCTTC GCT CTGGA rat M29311 Name: R.MHC II a-196F
Name: R.MHC II a-266R Name: R.MHC II a-220T MHCII .alpha. Sequence:
GGCACAGTCAAGGCTGAG Sequence: TCGCGCTCCTGGAAGATG Sequence:
AAGCTGGTCATCAATGGGA AAT AACCCATC
[0074]
4TABLE 4 Efficacy Markers Mac-1 MHC II .alpha. chain MHC II (Ia) Li
chain CD86 MCP-1 CCR5 CCR2 GRO(.dbd.KC) MIP2 IL-10 IL-12 p40
IFN-.gamma. CD3 .epsilon. CD4 IgG-1 .kappa. (light chain) GFAP
Example 2
Bilateral Common Carotid Occlusion (BC) in Mice
[0075] A. Transmitter Implantation
[0076] At least 2 days before induction of global ischemia mice
were anesthetized with 1.5-3.0% isoflurane carried in 100% oxygen
in a holding chamber until they were unconscious. Mice were
transferred to a thermoregulated heating pad to maintain body
temperature at 37.degree. C. Mice were given continuous gas
anesthesia by a nose cone apparatus, and the percentage of
isoflurane adjusted within the pre-determined range (1.5-3.0%)
until the animal reached a surgical plane of anesthesia as
monitored by lack of pedal (toe pinch) reflex. The abdominal
surface was shaved to remove hair and scrubbed with Betadine.RTM.
(povidone, an anti-microbial solution) to ensure an aseptic area.
All instruments utilized for the surgical procedure were sterilized
daily by soaking in cetylcide for 30 minutes, rinsed in sterile
water and air dried. For subsequent surgeries instruments were
sterilized by heated glass bead sterilization or soaking as
previuously described.
[0077] A ventral midline incision was made (approximately 2 cm in
length) along the midline of the abdomen through the skin and
abdominal muscle wall, and a sterile radio transmitter (3 g, 1.4
cm.sup.3) was placed inside the abdomen. The muscle layer was
closed with absorbable 4-0 vicryl suture using a pattern of
interrupted sutures. The skin was closed with a 4-0 or 5-0
monofilament nylon suture coated with tissue adhesive, using a
pattern of interrupted sutures. Gas anesthesia was withdrawn and
the mice were left on the heating pad and observed by the surgeon
continuously until they regained consiousness and could maintain a
ventral posture. The mice were returned to their cages on receiving
pads.
[0078] B. Bilateral Occlusion of the Common Carotid Arteries
[0079] As described for implantation of the radio transmitters,
mice were anesthetized to reach the surgical plane of anesthesia.
All instruments were maintained for sterility as described above.
The mice were placed on thermoregulated heating pads and their body
temperature maintained between 36.0 and 37.5.degree. C. throughout
the procedure. The throat was shaved and gently scrubbed with
Betadine.RTM.. An incision (0.5-1.0 cm) perpendicular to midline
was made through the skin just superior to the sternum. The common
carotid arteries were visually identified; it was not necessary to
cut musculature to gain access. The carotid arteries were blunt
dissected from surrounding tissue, vein and vagus nerve, and a
thread of 3.0 silk suture was passed underneath each artery. The
thread was used to lift the artery away from the surrounding tissue
and a small arterial clip was placed around the artery to provide
occlusion. The clip was allowed to remain in place for 15 minutes,
during which time the mouse was continually anesthetized, and body
temperature was noted at 5 minute intervals. The clips were removed
and the carotid arteries were visually inspected to confirm blood
flow. The silk sutures were removed and the skin was closed with a
series of interrupted stitches using 4-0 or 5-0 monofilament nylon
suture. The mouse was returned to its cage, and the cage placed
back on the receiving pad.
[0080] At a specified time after the BCO surgery, the mice were
anesthetized with sodium pentobarbital (0.25 ml administered
intraperitoneally of 32 mg/ml) and monitored until there is a lack
of pedal reflex. The animals were transcardially perfused with ice
cold, sterile saline. The brain was removed, and the hippocampus
was dissected out and snap frozen on dry ice in `RNase free tubes`.
RNA was then extracted from these samples and quantitative PCR is
run according to methods set forth in Example 1.
Example 3
Rat Facial Nerve Axotomy
[0081] Two month old male Wistar rats weighing 280-300 grn were
subjected to a unilateral transection of the facial nerve 2-3 mm
distal to the stylomastoid formen under isoflurane anesthesia.
Seven days later, animals were euthanized. Facial nuclei from
lesioned (left, n=4) and control (right, n=4) sides were
microdissected with a coronal brain matrix (A 1.4-3.3 mm) and a
puncher (V 0-1.8 mm, L 0.9-1.7 mm). Frozen 20 .mu.m sections were
taken and were cresyl stained to insure that the entire facial
nucleus had been removed. The isolated facial nuclei were processed
for RNA extraction using the Invitrogen S.N.A.P.T..TM. Total RNA
Isolation Kit (Invitrogen Cat# K 1950, Carlsbad, Calif.) according
to the manufacturer's directions with the following modifications:
The tissue was homogenized using a rotor-stator homogenizer
(Fisher) for 20 seconds. The DNA digestion step was repeated a
second time following the isopropanol precipitation.
[0082] Quantitative RT-PCR analysis was carried out on the isolated
RNA using primers and probes specific for rat GAPDH (M17701),
Norway rat GFAP (Z48978), and Wistar rat MHC II I.alpha.
(M29311).
[0083] Based on RNA yields from serveral independent dissections
with either individual nuclei, or pooled nuclei, approximately
1-1.5 .mu.g of total RNA was extracted per facial nucleus (ranged
from 0.7-2.2) using a variety of RNA extraction methods including
our standard method worked out for qtPCR of mouse brain RNA. The
integrity of the RNA has been confirmed by northern blot analysis
using a cDNA probe for actin. Northern blot analysis showed two
mRNAs for actin at 1.8 kb and 4.6 kb, which confirmed the integrity
of RNA isolation.
Example 4
mRNA Expression of Certain Markers in APP Transgenic Mice Immunized
with A.beta.1-42 or Fragments Thereof
[0084] Transgenic mice overexpressing APP with a mutation at
position 717 (APP.sub.717V F), which are predisposed to develop
Alzheimer's-like neuropathology (PDAPP mice, described in Games et
al., Nature 373, 523 (1995)), were immunized with AP1-42 or a
fragment thereof. Immunization with A.beta.1-42 or a fragment
thereof has been shown to prevent deposition or clear A.beta. from
brain tissue, with the concommittant elimination of subsequent
neuronal and inflammatory degenerative changes associated with
A.beta.. mRNA expression of various markers was determined in
A.beta.-treated mice and control mice that were not treated with
A.beta.. The results are presented below in Table 5 as a ratio of
mRNA of A.beta.-treated mice to non-A.beta.-treated mice. Preferred
primers are shown in Table 6. As shown below, the mRNA expression
of various markers increased in A.beta.-treated mice. The increases
observed in MCP-1, IL-10, IL-12, CD3, CD4, IgG-1, and Ig k mRNA
expression are particularly compelling. Immunization with
A.beta.1-42 or a fragment thereof has been shown to prevent
deposition or clear A.beta.from brain tissue, with the
concommittant elimination of subsequent neuronal and inflammatory
degenerative changes associated with A.beta.. Thus, the efficacy of
A.beta.-treatment can be assessed by comparing the mRNA expression
of such markers.
5TABLE 5 A.beta.1-42/ A.beta.1-42/ Control Control A.beta.1-5/
A.beta.1-12/ A.beta.40-1/ Marker Hippocamp Fr cortex Control
Control Control MCP-1 2.9X 3X 0.75X 0.43X 1.31X IL-10 15X 116X ND
ND ND IL-12 8.4X 4.1X ND ND ND IFN-.gamma. 1.4X 2.7X .8X .43X 1.85X
CD3.epsilon. 35X 272X ND ND ND CD4 6.3X 10.3X 0.99X 0.59X 1.19X
IgG-1 0 300X ND ND ND Igk 1.3X 6.6X 2.I0X 1.89X 1.39X
Example 5
Increased Osteopontin mRNA Expression in APP Transgenic Mice
Compared to Non-transgenic Mice
[0085] Osteopontin mRNA levels were determined in PDAPP and
non-transgenic mice. Preferred primers are shown in Table 6. At 2,
12 and 18 months of age, PDAPP mice had levels of osteopontin mRNA
3.41.times., 6.26.times. and 2.65.times., respectively, greater
than the osteopontin mRNA levels of non-transgenic mice.
6TABLE 6 Marker F. primer. seq. R. primer seq. probe seq.
Osteopontin 15F:GATTTGCTTTTGCCTGTTTGG 81R:TGAGCTGCCAGAATCAGTCACT
38T:TTGCCTCCTCCCTCCCGGTGA VitD3-24OHase 1164F:CCCAAGTGTGCCATTCACAAC
1236R:TCCTTTGGGTAGCGTGTATTCA 1186:CGGACCCTTGACAAGCCAAC CGT MCP-1
47F:GCTGGAGCATCCACGTGTT 142R:GCCTACTCATTGGGATCATCTTG
71T:AGCCAGATGCAGTTAACGCCCC ACT IL-10 #2-294F:AGAGAAGCATGGCCCAGAAAT
#2-365R:CGCATCCTGAGGGTCTTCA #2-317T:CTTCTCACCCAGGGAATT CAAATGCTCCT
IL-12p40, #1 662F:ACAGCACCAGCTTCTTCATCAG
734R:TTCAAAGGCTTCATCTGCAAGTT 687T:CATCATCAAACCAGACCCGCC CAA #2
929F:ACATCTACCGAAGTCCAATGCA 1002R:CATGAGGAATTGTAATAGCGAT
952T:AGGCGGGAATGTCTGCGTGCA CCT IFN-gamma, #1
378F:CAGCAACAGCAAGGCGAAA 450R:CTGGACCTGTGGGTTGTTGAC
398T:AGGATGCATTCATGAGTATTG CCAAGTTTGA #2
67F:ACAATGAACGCTACACACTGCAT 139R:CGTGGCAGTAACAGCCAGAA
91T:TTGGCTTTGCAGCTCTTCCTCA TGG CD3 epsilon
115F:GAGTTGACGTGCCCTCTAGACAG 193R:TATCATGCTTCTGAGGCAGCTC
140T:TGGCCATTTTTTTCCCATTTT AAGTTCTCGT CD4, #1
359F:AGGTGGAGTTGTGGGTGTTCA 426R:CAGGCTCTGCCCTTGCAA
381T:AGTGACCTTCAGTCCGGGTA CCAGCC #2 388F:AGGAAAGAGGAGGTGGAGTTGTG
465R:CAGGCTCTGCCCTTGCAA 413T:TGTTCAAAGTGACCTTCAGTC CGGGTACC IgG-1
134F:TGGAGGTGCACACAGCTCAG 195R:TGAGCGGAAAGTGCTGTTGA
155T:CTGCTCCTCCCGGGGTTGCG Ig k (light chain)
151F:GGCGTCCTGAACAGTTGGA 219R:CGTGAGGGTGCTGCTCATG
171T:TGATCAGGACAGCAAAGA- CAG CACCTACA Marker Amplicon Osteoponsin
gatttgcttttgcctgtttggcattgcctcctccctcccggtgaaagtgactgattct-
ggcagctca VitD3-24OHase cccaagtgtgccattcacaactcggacccttga-
caagccaaccgttctgggtgaatacacgctacccaaagga MCP-1
gctggagcatccacgtgttggctcagccagatgcagttaacgccccactcacctgctgctactcattcaccag-
caagatgatccc aatgagtaggc IL-10
agagaagcatggcccagaaatcaaggagcatttgaattccctgggtgagaagctgaagaccctcaggatgcg
IL-12 p40, #1 acagcaccagcttcttcatcagggacatcatcaaaccagaccc-
gcccaagaacttgcagatgaagcctttgaa #2
acatctaccgaagtccaatgcaaaggcgggaatgtctgcgtgcaagctcaggatcgctattacaattcctcat-
g IFN-gamma, #1 cagcaacagcaaggcgaaaaaggatgcattcatgagtattgc-
caagtttgaggtcaacaacccacaggtccag #2
acaatgaacgctacacactgcatcttggctttgcagctcttcctcatggctgtttctggctgttactgccacg
CD3 epsilon gagttgacgtgccctagacagtgacgagaacttaaaatgggaaaa-
aaatggccaagagctgcctcagaagcatgata CD4, #1
aggtggagttgtgggtgttcaaagtgaccttcagtccgggtaccagcctg #2
aggaaagaggaggtggagttgtgggtgttcaaagtgaccttcagtccgggtaccagcctgttgcaagggcaga-
gcctg IgG-1 tggaggtgcacacagctcagacgcaaccccgggaggagcagttcaa-
cagcactttccgctca Ig k (light chain)
ggcgtcctgaacagttggactgatcaggacagcaaagacagcacctacagcatgagcagcaccctcacg
[0086] While the invention has been described with reference to
specific methods and embodiments, it will be appreciated that
various modifications and changes may be made without departing
from the invention.
Sequence CWU 1
1
85 1 20 DNA Artificial Sequence MoGapdh251F forward primer 1
gggaagccca tcaccatctt 20 2 20 DNA Artificial Sequence MoGapdh363R
reverse primer 2 gccttctcca tggtggtgaa 20 3 29 DNA Artificial
Sequence MoGapdh272T probe 3 caggagcgag accccactaa catcaaatg 29 4
20 DNA Artificial Sequence mGFAP-420F forward primer 4 ctggaggtgg
agagggacaa 20 5 22 DNA Artificial Sequence mGFAP-489R reverse
primer 5 tggtttcatc ttggagcttc tg 22 6 21 DNA Artificial Sequence
mGFAP-443T probe 6 tgcacaggac ctcggcaccc t 21 7 22 DNA Artificial
Sequence mMip1a128F forward primer 7 caagtcttct cagcgccata tg 22 8
27 DNA Artificial Sequence mMip1a229F reverse primer 8 ggtttcaaaa
tagtcaacga tgaattg 27 9 29 DNA Artificial Sequence mMip1a172T probe
9 ctgcttctcc tacagccgga agattccac 29 10 20 DNA Artificial Sequence
mTNFa-420F forward primer 10 ctggaggtgg agagggacaa 20 11 22 DNA
Artificial Sequence mTNFa-492R reverse primer 11 ggttggtttc
atcttggagc tt 22 12 21 DNA Artificial Sequence mTNFa-442T probe 12
ttgcacagga cctcggcacc c 21 13 21 DNA Artificial Sequence mIL1B-2F
forward primer 13 gcagggttcg aggcctaata g 21 14 23 DNA Artificial
Sequence mIL1B-114R reverse primer 14 gtggcatttc acagttgagt tca 23
15 25 DNA Artificial Sequence mIL1B-30T probe 15 tgggatcctc
tccagccaag cttcc 25 16 16 DNA Artificial Sequence mCD86 #2-250F
forward primer 16 ggccgcacga gctttg 16 17 20 DNA Artificial
Sequence mCD86 #2-321R reverse primer 17 cgagcccatg tccttgatct 20
18 32 DNA Artificial Sequence mCD86 #2-267T probe 18 caggaacaac
tggactctac gacttcacaa tg 32 19 14 DNA Artificial Sequence mMHC
II(Ia), Li chain-418F forward primer 19 cgcgggcgcc ataa 14 20 21
DNA Artificial Sequence mMHC II(Ia), Li chain-479R reverse primer
20 actcccaggc cagaagatag g 21 21 25 DNA Artificial Sequence mMHC
II(Ia), Li chain-433TR probe 21 cttccatgtc cagtggctca ctgca 25 22
20 DNA Artificial Sequence mMHC II(Ia), a chain-294F forward primer
22 ccaccccagc taccaatgag 20 23 22 DNA Artificial Sequence mMHC
II(Ia), a chain-386R reverse primer 23 ccacaaagca gatgagggtg tt 22
24 22 DNA Artificial Sequence mMHC II(Ia), a chain-335T probe 24
cccaagtccc ctgtgctgct gg 22 25 24 DNA Artificial Sequence
R.GAPDH-750F forward primer 25 tgccaagtat gatgacatca agaa 24 26 20
DNA Artificial Sequence R.GAPDH-820R reverse primer 26 agcccaggat
gccctttagt 20 27 18 DNA Artificial Sequence R.GAPDH-781T probe 27
aagcaggcgg ccgagggc 18 28 22 DNA Artificial Sequence R.GFAP-2099F
forward primer 28 ctcaatgacc gctttgctag ct 22 29 18 DNA Artificial
Sequence R.GFAP-2165R reverse primer 29 ccagcgcctt gttttgct 18 30
24 DNA Artificial Sequence R.GFAP-2122T probe 30 catcgagaag
gtccgcttcc tgga 24 31 21 DNA Artificial Sequence R.MHC II a-196F
forward primer 31 ggcacagtca aggctgagaa t 21 32 18 DNA Artificial
Sequence R.MHC II a-266R reverse primer 32 tcgcgctcct ggaagatg 18
33 27 DNA Artificial Sequence R.MHC II a-220T probe 33 aagctggtca
tcaatgggaa acccatc 27 34 21 DNA Artificial Sequence Osteopontin
forward primer 34 gatttgcttt tgcctgtttg g 21 35 22 DNA Artificial
Sequence Osteopontin reverse primer 35 tgagctgcca gaatcagtca ct 22
36 21 DNA Artificial Sequence Osteopontin probe 36 ttgcctcctc
cctcccggtg a 21 37 21 DNA Artificial Sequence VitD3-24OHase forward
primer 37 cccaagtgtg ccattcacaa c 21 38 22 DNA Artificial Sequence
VitD3-24OHase reverse primer 38 tcctttgggt agcgtgtatt ca 22 39 23
DNA Artificial Sequence VitD3-24OHase probe 39 cggacccttg
acaagccaac cgt 23 40 19 DNA Artificial Sequence MCP-1 forward
primer 40 gctggagcat ccacgtgtt 19 41 23 DNA Artificial Sequence
MCP-1 reverse primer 41 gcctactcat tgggatcatc ttg 23 42 25 DNA
Artificial Sequence MCP-1 probe 42 agccagatgc agttaacgcc ccact 25
43 21 DNA Artificial Sequence IL-10 forward primer 43 agagaagcat
ggcccagaaa t 21 44 19 DNA Artificial Sequence IL-10 reverse primer
44 cgcatcctga gggtcttca 19 45 29 DNA Artificial Sequence IL-10
probe 45 cttctcaccc agggaattca aatgctcct 29 46 22 DNA Artificial
Sequence IL-12 p40, #1 forward primer 46 acagcaccag cttcttcatc ag
22 47 23 DNA Artificial Sequence IL-12 p40, #1 reverse primer 47
ttcaaaggct tcatctgcaa gtt 23 48 24 DNA Artificial Sequence IL-12
p40, #1 probe 48 catcatcaaa ccagacccgc ccaa 24 49 22 DNA Artificial
Sequence IL-12 p40 #2 forward primer 49 acatctaccg aagtccaatg ca 22
50 25 DNA Artificial Sequence IL-12 p40 #2 reverse primer 50
catgaggaat tgtaatagcg atcct 25 51 21 DNA Artificial Sequence IL-12
p40 #2 probe 51 aggcgggaat gtctgcgtgc a 21 52 19 DNA Artificial
Sequence INF-gamma, #1 forward primer 52 cagcaacagc aaggcgaaa 19 53
21 DNA Artificial Sequence INF-gamma, #1 reverse primer 53
ctggacctgt gggttgttga c 21 54 31 DNA Artificial Sequence INF-gamma,
#1 probe 54 aggatgcatt catgagtatt gccaagtttg a 31 55 23 DNA
Artificial Sequence INF-gamma, #2 forward primer 55 acaatgaacg
ctacacactg cat 23 56 20 DNA Artificial Sequence INF-gamma, #2
reverse primer 56 cgtggcagta acagccagaa 20 57 25 DNA Artificial
Sequence INF-gamma, #2 probe 57 ttggctttgc agctcttcct catgg 25 58
23 DNA Artificial Sequence CD3 epsilon forward primer 58 gagttgacgt
gccctctaga cag 23 59 22 DNA Artificial Sequence CD3 epsilon reverse
primer 59 tatcatgctt ctgaggcagc tc 22 60 31 DNA Artificial Sequence
CD3 epsilon probe 60 tggccatttt tttcccattt taagttctcg t 31 61 21
DNA Artificial Sequence CD4, #1 forward primer 61 aggtggagtt
gtgggtgttc a 21 62 18 DNA Artificial Sequence CD4, #1 reverse
primer 62 caggctctgc ccttgcaa 18 63 26 DNA Artificial Sequence CD4,
#1 probe 63 agtgaccttc agtccgggta ccagcc 26 64 23 DNA Artificial
Sequence CD4, #2 forward primer 64 aggaaagagg aggtggagtt gtg 23 65
18 DNA Artificial Sequence CD4, #2 reverse primer 65 caggctctgc
ccttgcaa 18 66 29 DNA Artificial Sequence CD4, #2 probe 66
tgttcaaagt gaccttcagt ccgggtacc 29 67 20 DNA Artificial Sequence
IgG-1 forward primer 67 tggaggtgca cacagctcag 20 68 20 DNA
Artificial Sequence IgG-1 reverse primer 68 tgagcggaaa gtgctgttga
20 69 20 DNA Artificial Sequence IgG-1 probe 69 ctgctcctcc
cggggttgcg 20 70 19 DNA Artificial Sequence IgK (light chain)
forward primer 70 ggcgtcctga acagttgga 19 71 19 DNA Artificial
Sequence IgK (light chain) reverse primer 71 cgtgagggtg ctgctcatg
19 72 29 DNA Artificial Sequence IgK (light chain) probe 72
tgatcaggac agcaaagaca gcacctaca 29 73 67 DNA Artificial Sequence
Osteopontin marker 73 gatttgcttt tgcctgtttg gcattgcctc ctccctcccg
gtgaaagtga ctgattctgg 60 cagctca 67 74 73 DNA Artificial Sequence
VitD3-24OHase marker 74 cccaagtgtg ccattcacaa ctcggaccct tgacaagcca
accgttctgg gtgaatacac 60 gctacccaaa gga 73 75 96 DNA Artificial
Sequence MCP-1 marker 75 gctggagcat ccacgtgttg gctcagccag
atgcagttaa cgccccactc acctgctgct 60 actcattcac cagcaagatg
atcccaatga gtaggc 96 76 72 DNA Artificial Sequence IL-10 marker 76
agagaagcat ggcccagaaa tcaaggagca tttgaattcc ctgggtgaga agctgaagac
60 cctcaggatg cg 72 77 73 DNA Artificial Sequence IL-12 p40, #1
marker 77 acagcaccag cttcttcatc agggacatca tcaaaccaga cccgcccaag
aacttgcaga 60 tgaagccttt gaa 73 78 74 DNA Artificial Sequence IL-12
p40, #2 marker 78 acatctaccg aagtccaatg caaaggcggg aatgtctgcg
tgcaagctca ggatcgctat 60 tacaattcct catg 74 79 73 DNA Artificial
Sequence IFN-gamma, #1 marker 79 cagcaacagc aaggcgaaaa aggatgcatt
catgagtatt gccaagtttg aggtcaacaa 60 cccacaggtc cag 73 80 73 DNA
Artificial Sequence IFN-gamma, #2 marker 80 acaatgaacg ctacacactg
catcttggct ttgcagctct tcctcatggc tgtttctggc 60 tgttactgcc acg 73 81
79 DNA Artificial Sequence CD3 epsilon marker 81 gagttgacgt
gccctctaga cagtgacgag aacttaaaat gggaaaaaaa tggccaagag 60
ctgcctcaga agcatgata 79 82 50 DNA Artificial Sequence CD4, #1
marker 82 aggtggagtt gtgggtgttc aaagtgacct tcagtccggg taccagcctg 50
83 78 DNA Artificial Sequence CD4, #2 marker 83 aggaaagagg
aggtggagtt gtgggtgttc aaagtgacct tcagtccggg taccagcctg 60
ttgcaagggc agagcctg 78 84 62 DNA Artificial Sequence IgG-1 marker
84 tggaggtgca cacagctcag acgcaacccc gggaggagca gttcaacagc
actttccgct 60 ca 62 85 69 DNA Artificial Sequence IgK (light chain)
marker 85 ggcgtcctga acagttggac tgatcaggac agcaaagaca gcacctacag
catgagcagc 60 accctcacg 69
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