System and products for improved quantification of ADCC activity
11280790 · 2022-03-22
Assignee
Inventors
Cpc classification
C12N9/22
CHEMISTRY; METALLURGY
C12N2800/80
CHEMISTRY; METALLURGY
C12N15/63
CHEMISTRY; METALLURGY
C12N15/86
CHEMISTRY; METALLURGY
International classification
G01N33/50
PHYSICS
C12N15/63
CHEMISTRY; METALLURGY
C12N9/22
CHEMISTRY; METALLURGY
Abstract
The activity of a number of therapeutic antibodies is mediated in part by antibody-dependent cell-mediated cytotoxicity (ADCC). An engineered effector cell line expressing the low affinity Fc receptor, FcγR111a (CD16), that responds to ligation of the Fc moiety of antibody bound to the specific antigen expressed on target cells by activation of a NFAT responsive reporter gene is described. In this cell line the firefly luciferase (FL) reporter gene is regulated by a novel synthetic chimeric promoter containing binding sites for NF-AT, AP1, NFkB, and STAT5 that confers improved sensitivity, an improved dynamic range, an improved tolerance to human serum and a reduced incubation time, relative to engineered effector cell lines that express a NFAT regulated reporter-gene, when used in an ADCC assay together with engineered target cells. The target cells have been engineered to over-express a constant high level of the specific antigen recognized by the therapeutic antibody, and homologous control cells have been developed in which the gene encoding the specific drug target has been invalidated by genomic editing. Target cells that have been engineered to over-express a constant level of CD20 together with homologous control cell line, in which the gene encoding CD20 has been invalidated, have been used to quantify the ADCC activity of Rituxan with a high degree of precision and with minimal interference from human serum.
Claims
1. A polynucleotide comprising the DNA sequence of SEQ ID NO: 1 operably linked to a downstream promoter, wherein the DNA sequence of SEQ ID NO: 1 is a cis acting regulatory sequence.
2. The polynucleotide according to claim 1, wherein the promotor is operably linked to an open read frame sequence encoding a first reporter protein.
3. The polynucleotide according to claim 2, wherein the reporter protein is an enzyme or a fluorescent protein.
4. A vector construct comprising the polynucleotide according to claim 2.
5. The vector according to claim 4, wherein said vector is a plasmid or viral vector.
6. A cell comprising the vector according to claim 4.
7. The cell according to claim 6, wherein said vector is episomal or integrated in the genome of said cell.
8. The cell according to claim 6, wherein the cell further expresses a second reporter protein which is different from the first reporter protein.
9. A kit comprising: i) a cell according to claim 6, capable of binding to the Fc region of an antibody by the Fc gamma receptors expressed on said cell; ii) a cell (T−) in which the endogenous target/antigen to which said antibody is specific is invalidated such that the target/antigen is not expressed by the cell; and iii) a target cell (T+) in which the expression of the target to which said antibody is specific is expressed by the cell.
10. A kit according to claim 9, wherein the T− cell and the T+ cell are identical except that the T− cell does not express a specific antigen recognized by the antibody or a drug being assayed.
11. The kit according to claim 9, wherein the target/antigen is CD20, mTNFα, erbB2, and/or EGFR.
12. The kit according to claim 9, which comprises two vials and wherein the cells in i) and iii) are present in the same vial at an optimal effector cell to target cell (E:T) ratio.
13. The kit according to claim 9, wherein the ratio between the effector cell in i) and the target cell in iii) (E:T ratio) is 24:1 to 2:1, 6:1, 3:1, or 1.5:1.
14. A method for quantifying the Antibody-Dependent Cell-mediated Cytotoxicity (ADCC) activity ex vivo in clinical samples from patients treated with therapeutic antibodies, the method comprising the steps of: a) contacting a sample obtained from a patient undergoing therapeutic antibody treatment with target cells (T+) which express the target to which said therapeutic antibody is specific, b) subtracting the signal obtained in the presence of cells (T−) in which the endogenous target/antigen to which said therapeutic antibody is specific is invalidated such that the target/antigen is not expressed by the cell, from the signal obtained in the presence of effector cells (E), wherein the effector cell is the cell according to claim 6, capable of binding to the Fc region of an antibody by the Fc gamma receptors expressed on said effector cells and target cells T+, c) determining the ADCC activity on the basis of the signal relationship as measured in a) and b), and wherein a positive result for a serum sample is present when the signal relationship for Effector cells E & T+ cells/Effector cells E & T− cells ≥1 and wherein a negative result for a serum sample is present when the value for Effector cells E & T+ cells/value for Effector cells E & T− cells ≤1, using the formula [(E+T++Drug+NHS)−(E+T−+NHS)+(E+T+)]/E+T+, or [(E+T++NHS)−(E+T−+NHS)+(E+T+)]/E+T+, wherein NHS=normal human serum sample.
15. A method for compensating for the non-specific increase in the reporter-gene signal in the presence of human serum, the method comprising: subtracting the signal obtained in the presence of effector cells (E), wherein the effector cell is the cell according to claim 6, capable of binding to the Fc region of an antibody by the Fc gamma receptors expressed on said effector cells, from the signal obtained in the presence of effector cells E and target cells (T+) which express the target to which said antibody is specific, that express the drug target or serum samples that exhibit activity that is not related to ADCC activity specific to the antibody under investigation when Effector cells E & Target negative cells (T−) in which the endogenous target/antigen to which said antibody is specific is invalidated such that the target/antigen is not expressed by the cell, >1, using the formula [E+T++Drug+NHS)−(E+T−+NHS)+(E+T+)]/E+T+, or [E+T++NHS)−(E+T−+NHS)+(E+T+)]/E+T+, wherein NHS=normal human serum sample.
16. The polynucleotide according to claim 3, wherein the enzyme is a luciferase.
17. The method of claim 14, wherein the positive result for a serum sample is characterized by detectable ADCC activity and the negative result for a serum sample is characterized by no detectable ADCC activity.
Description
FIGURES
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[(E+T++Drug+NHS)−(E+T−+NHS)+(E+T+)]/E+T+
or
[(E+T++NHS)−(E+T−+NHS)+(E+T+)]/E+T+
Where (E)=effector cells, (T+)=antigen positive target cells, (T−)=antigen negative target cells, and NHS=normal human serum sample. The measurements used when calculating normalized ADCC activity is the RLU (Relative Luciferase Units) measured for each entity in the above formula.
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SUMMARY OF THE INVENTION
(34) The present invention solves the above mentioned problems and provides i.a. a substantial improvement in the freeze, thaw and use effector cells of prior art assays so as to provide an improved sensitivity, an improved dynamic range, improved tolerance to the presence of human serum, and reduced incubation time. The improved sensitivity manifests itself in a substantially improved EC.sub.50 and LLOQ (Lower Limit of Quantification). Specifically, present invention provides for a cell line and ultimately use thereof in a kit for an increased sensitivity (measured as the EC.sub.50) or LLOQ which is at least about 10 fold in comparison with techniques known in the art. Consequently, the sensitivity or LLOQ is increased by at least about 20 fold, at least about 50 fold or at least about 100 fold in comparison with techniques known in the art. Similarly, present invention provides for a cell line and ultimately use thereof in a kit for an increased dynamic range which is at least about 10 fold in comparison with techniques known in the art. Consequently, the dynamic range is at least about 20 fold, at least about 50 fold or at least about 100 fold in comparison with techniques known in the art.
(35) Consequently, present invention relates to a polynucleotide comprising a cis-acting regulatory sequence operably linked to a downstream promotor, wherein one or more of NF-AT, AP1, NFkB, STAT1, STAT3 and STAT5 is capable of binding to said cis-acting regulatory sequence. The invention may include said polynucleotide wherein all of NF-AT, AP1, NFkB, STAT1, STAT3 and STAT5 are capable of binding to said cis-acting regulatory sequence.
(36) The promotor may be operable linked to an open read frame sequence encoding a first reporter protein which may be an enzyme. For the purpose of the invention any reporter protein may be used such as e.g. a luciferase or a fluorescent protein.
(37) The invention also relates to a vector, such as e.g. a vector construct comprising the polynucleotide according to the invention. The vector may be of any type known in the art such as e.g. a plasmid or a viral vector.
(38) The invention also relates to a cell. In particular, the invention relates to a cell comprising the vector according to the invention. The vector may be episomal or integrated in the genome of said cell. The cell may be of any origin and in particular a mammalian cell. Importantly, the cell may further express a second reporter protein which different from the first reporter protein. The cells according to the invention may be of any cell line known in the art such as e.g. Jurkat, SKBR3, or HEK293 cells.
(39) The invention also relates to a kit or a kit of parts. The kit may comprise: i) a cell according to the invention; ii) a cell target cell in which the endogenous target to which an antibody is specific is invalidated (mutated); and iii) a target cell in which the expression of the target to which an antibody is specific is enhanced.
(40) The cell according to the invention may act as an effector cell in the ADCC mechanism.
(41) In one aspect, the invention relates to a kit, comprising:
(42) i) an effector cell (E) according to the invention, capable of binding to the Fc region of an antibody;
(43) ii) a cell (T−) in which the endogenous target/antigen to which an said antibody is specific is invalidated (mutated) such that the target/antigen is not expressed by the cell; and
(44) iii) a target cell (T+) in which the expression of the target to which an said antibody is specific is enhanced or overexpressed.
(45) In a further aspect of the invention the cell in ii) and the cell iii) are exactly the same cell identical in all respects except the cell in ii) does not express a specific antigen recognized by the antibody or drug being assayed.
(46) The target cell may be any type of cell. The target cell may be recombinant. The kit thus comprises a target cell in which the endogenous target to which an antibody is specific is invalidated (mutated), i.e. the target/receptor is deleted or otherwise may non-functional or has by any means lost its capability to bind the antibody in question.
(47) The kit also comprises a target cell wherein the same target is enhanced, i.e. such that the target is overexpressed.
(48) The target may in principle be any target to which the relevant antibody is capable to bind. In one aspect the target may be one or more of CD20, mTNFα, erbB2, EGFR.
(49) The kit may also comprise one or more vials, such as e.g. 2 or more vials etc. In one aspect, the kit may comprise one vial which comprises a mixture of cells i) with a mixture of cells iii). In such instance the kit comprises two vials, the second vial comprises the cells of ii) as mentioned above. Thus, in one instance, the kit comprises two vials wherein one vial comprises the effector cells i) and the target cells ii) having the target to which the antibody in question is specific enhanced/overexpressed. The second vial consequently comprises the target cells ii), wherein the target is invalidated or target/receptor is deleted or otherwise may non-functional or has by any means lost its capability to bind the antibody in question.
(50) In one aspect of the invention, one vial of the kit comprises a mixture of cells i) with a mixture of cells iii) in an optimal ratio referred herein as the E:T ratio, wherein E denotes the cells in paragraph i) above (Effector cells). T denotes the cells in iii) above (Target cells). The optimal E:T ratio is further described herein and in the experimental part.
(51) In the kit and the method according to the invention the same E:T ratio is used for the effector cells i) and the target cells ii), as has been found for the relation between effector cells i) and target cells iii).
(52) The invention also relates to a method for quantifying the ADCC activity ex vivo in clinical samples from patients treated with therapeutic antibodies.
(53) The method may comprise the steps of; a) contacting a sample obtained from a patient undergoing treatment comprising administration of an antibody, with target cells ii) according to the kit and invention, b) subtracting the signal obtained in the presence of cells i), from the signal obtained in the presence of cells i) and target cells iii). c) determining the ADCC activity on the basis of the signal relationship as measured in a) and b).
(54) In the method described above a positive result for a serum sample (i.e. detectable ADCC activity) is present when the signal relationship for Effector cells i) & Target++ cells iii)/Effector cells i) & Target−/− cells ii)≥1.
(55) A negative result for a serum sample (i.e. no detectable ADCC activity) is present when the value for Effector cells i) & Target++ cells iii)/value for Effector cells i) & Target−/− cells ii)≤1.
(56) In one aspect, the invention relates to a method for quantifying the Antibody-Dependent Cell-mediated Cytotoxicity (ADCC) activity ex vivo in clinical samples from patients treated with therapeutic antibodies, the method comprising the steps of; a) contacting a sample obtained from a patient undergoing treatment comprising administration of an antibody, with target cells iii) according to the invention, b) subtracting the signal obtained in the presence of cells ii) according to the invention, in which the drug target has been invalidated, from the signal obtained in the presence of effector cells i) according to the invention and target cells iii) according to the invention, c) determining the ADCC activity on the basis of the signal relationship as measured in a) and b), and wherein a positive result for a serum sample (i.e. detectable ADCC activity) is present when the signal relationship for Effector cells i) & Target++ cells iii)/Effector cells i) & Target−/− cells ii)≥1 and wherein a negative result for a serum sample (i.e. no detectable ADCC activity) is present when the value for Effector cells i) & Target++ cells iii)/value for Effector cells i) & Target−/− cells ii)≥1, using the formula the formula [(E+T++Drug+NHS)−(E+T−+NHS)+(E+T+)]/E+T+, or [(E+T++NHS)−(E+T−+NHS)+(E+T+)]/E+T+, wherein (E) is the effector cells according to the invention, wherein the (T+) cells are the cells according to the invention, wherein (T−) are the cells according to the invention, and NHS=normal human serum sample
(57) In another aspect, the invention relates to a method for compensating for the non-specific increase in the reporter-gene signal in the presence of human serum, the method comprising: subtracting the signal obtained in the presence of cells i), i.e. effector cells according to the invention, from the signal obtained in the presence of effector cells i) and target cells iii) according to the invention, that express the drug target or serum samples that exhibit activity that is not related to ADCC activity specific to the antibody under investigation when Effector cells i) & Target negative cells ii)>1, using the formula the formula [(E+T++Drug+NHS)−(E+T−+NHS)+(E+T+)]/E+T+, or [(E+T++NHS)−(E+T−+NHS)+(E+T+)]/E+T+, wherein (E) is the effector cells of the invention, wherein the (T+) cells are the cells according to the invention, wherein (T−) are the cells according to the invention, and NHS=normal human serum sample.
(58) The aforementioned signal may be any suitable read-out, In cases of a luciferase, the signal may be expressed as relative luciferase units (RLU) and consequently a positive result for a serum sample (i.e. detectable ADCC activity) is present when the RLU value for Effector cells i) & Target++ cells iii)/RLU value for Effector cells i) & Target−/− cells ii)≥1. A negative result for a serum sample (i.e. no detectable ADCC activity) is present when the RLU value for Effector cells i) & Target++ cells iii)/RLU value for Effector cells i) & Target−/− cells ii)≤1
(59) Thus the above method also enables a method for eliminating serum samples that exhibit activity that is not related to ADCC activity specific to the antibody under investigation when Effector cells i) & Target negative cells ii)>1.
(60) The formula used for calculating the above values is
[(E+T++Drug+NHS)−(E+T−+NHS)+(E+T+)]/E+T+ (I)
or
[(E+T++NHS)−(E+T−+NHS)+(E+T+)]/E+T+ (II)
(61) Where (E)=effector cells, (T+)=antigen positive target cells, (T−)=antigen negative target cells, and “NHS”=normal human serum sample. “Drug” denotes the measurement of ADCC activity in the presence of NHS that required the presence of drug and target cells. The measurements used when performing the calculation is the RLU (Relative Luciferase Units or more generally the Relative Luminescence Units depending on the enzyme used) measured for each entity in the above formula. The first equation/formula (I) is for the quantification of e.g. neutralizing antibodies in samples of human serum, and the second equation/formula (II) for the quantification of drug potency (activity) in human serum.
DETAILED DESCRIPTION OF THE INVENTION
(62) These features are obtained by means of the present invention in which the recombinant effector cells are transfected with a reporter gene construct that responds not only NF-AT, but also to other transcription factor such as e.g. AP1, NFkB, and STAT5 (3-5). By using a recombinant effector cell with a reporter gene construct that recognizes NFAT, AP1, NFkB, and STAT5 the above described advantages are obtained.
(63) In a preferred embodiment, in order to provide for a normalization of the assay, the recombinant effector cells further have a construct for the constitutive production of a luciferase that is different from that used in the reporter gene construct. For example, when the reporter gene construct produces firefly luciferase, the constitutive production may be of a second luciferase, e.g., Renilla luciferase. The activity of the first luciferase normalized relative to the activity of the second luciferase is described in US 2011/0189658 incorporated herein in its entirety by reference. When conducting the assay, after the reporter gene luciferase is measured, then a reagent is added to quench that specific luciferase so that any following reading will just read the luciferase from the constitutive construct, which then may be used for the purpose of normalization, as will be described in more detail in the examples.
(64) The advantages of using the constitutive expression of any luciferase is that the results are not influenced by loss of effector cells or by target cell killing of effector cells, nor are the results influenced by serum matrix effects. All of these can be compensated for by the normalization obtained through the use of the measurement of the constitutive expression of the other (second) luciferase. None of these advantages can be obtained in the procedure of prior art assays which does not use such normalization.
(65) A further improvement of the present invention over prior art assay is the use of recombinant target cells for use in the control experiments. Prior art assays uses only wild type target cells, not recombinant, for the positive control, and natural cells that do not constitutively express the antigen to which the antibody is specific, for the negative control. For example, in the CD20 assay, T cells are used which do not constitutively express CD20 as the negative control. For the positive control, wild type B-cells are used as the target. In a preferred embodiment of the present invention, target cells are produced from the same type of target cell as is being measured in vivo but with the antigen to which the antibody is specific being invalidated on the one hand (negative control) or its expression being enhanced on the other (positive control).
(66) By using a recombinant target cell in which the antigen to which the antibody is-specific has been invalidated, one has a much improved negative control as T cells are very different from the natural target cell and these differences affect the results somewhat. For example, it can prevent the heterologous effector cell (E) target cell (T) ratio (E:T ratio) curve from being a completely zero as the number of target cells is increased as the E:T ratio is changed. This problem is solved by using a recombinant target cell in which the gene, encoding the specific antigen recognized by the monoclonal antibody, has been invalidated.
(67) In a further preferred embodiment of the present invention, recombinant target cells are also provided that have enhanced expression of the antigen to which the antibody is specific. By having a positive control with much greater expression of the target antigen, one can obtain a much greater dynamic range in the control assay. Furthermore, the specific antigen is expressed at a constant high level and does not vary as cells proliferate or as a function of culture conditions as is the case for the wild type cells therefore affording improved assay precision. This allows the detection of subtle differences in ADCC activity of candidate antibodies to be determined. Another advantage of the recombinant target cells is that they can be provided in freeze, thaw and use format for much greater ease of use than either the harvesting or cultivation of target cells from human subjects or cultivation of target cell lines in the laboratory. Using such recombinant cells avoids the variability that will inherently be present in the target cells obtained from normal individuals or cells cultivated in vitro as such wild type cells will have variable expression of the antigen of interest depending on stage of maturation, the phase of the cell cycle or culture conditions. The use of a recombinant positive control eliminates this variability.
(68) The availability of target cells that over-express the specific drug target and the homologous control cells in which the drug target has been specifically invalidated using genome editing provides a means for compensating for the non-specific increase in FL (firefly luciferase) signal that is observed when an ADCC assay is carried out in the presence of human serum. Thus, the signal obtained in the presence of effector cells and the negative −/− target cells at a given drug concentration can be subtracted from the signal observed in the presence of the effector cells and the positive ++ target cells at the same drug concentration as shown for CD20++ and CD20−/− target cells and rituximab in Example 2 and for infliximab, adalimumab, and etanercept in Example 4.
(69) A further preferred feature of the present invention is a thaw and use format comprising a single frozen vial containing both effector cells and target cells at the optimal E:T ratio for a particular monoclonal antibody such as rituximab such that all the customer has to do is to add drug at a desired concentration, incubate and take a reading. A single frozen vial containing both effector cells and negative control target cells at the optimal E:T ratio for a particular monoclonal antibody is also supplied. Consequently, according to the invention the E:T ratio is in range from about 24:1 to about 1:1. Preferably, the ratio is e.g. about 24:1 to about 2:1, or about 6:1, or about 3:1, or about e.g. 1.5:1, or about 1:1. Such a format obviates the necessity for the user or the kit or method to determine the optimal E:T ratio and other assay parameters for a particular monoclonal antibody.
(70) A further preferred feature of the present invention is specific to assays for the assessment of the ADCC activity of infliximab or any other anti-TN F-alpha antibody or Fc fusion protein such as e.g. Enbrel.
(71) Quantification of the ADCC activity of TNFα antagonists requires a target cell expressing membrane bound TNFα. Although TNFα is initially membrane bound it is subsequently cleaved by ADAM17 (TACE) protease. Thus, in order to establish a cell line that expresses membrane-bound non-cleavable TNFα site-directed mutagenesis was used to mutate the protease cleavage site. Non-cleavable TNFα expressed on the surface of a cell will bind, however, to the TNFαRII receptor present on the surface of neighboring cells resulting in cell death and rendering the establishment of a permanent cell line difficult. Thus, or order to obviate such difficulties the TNFαRII receptor was invalidated using genome editing.
(72) For the negative control, TNFα expression in the homologous target cell has been invalidated using CRISPR/Cas9 genome editing but not the TNFαRII receptor.
(73) For antibodies that are directed to the HER2 receptor, the positive control is created by transfecting the target cell with a construct that expresses ERBB2.
(74) Another feature of the present invention is the regulatory sequence used in the chimeric promoter regulating expression of the firefly reporter gene. For this purpose, it is preferable not to use a native promoter that may contain binding sites for unrelated transcription factors leading to a loss of specificity but to design the regulatory sequence carrying binding sites for NF-AT, AP1, NFkB, and STAT5 such that these transcription factor will bind to and activate the reporter gene construct, but without creating binding sites for unrelated transcription factors in the linker sequences.
(75) A sequence that will permit these specific transcription factors to activate the promoter is non-trivial. Thus, the sequence used in the present invention is a novel embodiment of the present invention. Consequently, the invention relates to a DNA sequence having at least about 70% sequence identity to SEQ ID NO.: 1:
(76) TABLE-US-00001 (SEQ ID NO: 1) GGAAGCGAAA ATGAAATTGA CTGGGACTTT CCGGAGGAAA AACTGTTTCA TACAGAAGGC GTGGATGTCC ATATTAGGAT GAGTCAGTGA CGTCAGAGCC TGATTTCCCC GAAATGATGA GCTAG.
(77) Moreover, the invention relates to a DNA sequence having at least about 75% sequence identity, such as e.g. 80% sequence identity, such as e.g. about 85%, such as e.g. about 90%, such as e.g. about 95%, such as e.g. about 98%, such as e.g. about 99% sequence identity to SEQ ID NO.: 1 or a DNA sequence identical to SEQ ID NO.: 1.
Definitions
(78) The terms “invalidated” or “muted” used interchangeably herein is meant to knock out a particular gene to ultimately change the phenotype of a cell. Effectively, the term is meant to encompass rendering a gene non-functional. An example may be the invalidation of a certain gene to remove the expression of a surface cell receptor.
(79) The term “++” in relation to a “++ cell” is intended to mean a target cell in which the antigen/receptor is overexpressed. The terminology is used interchangeably herein with “T+”. Moreover, when the expression is used together with a receptor or antigen such as e.g. CD20++ is intended to mean that CD20 is overexpressed on the cell in question. As an example without intending to limit the scope of the invention, in the case of CD20 expression levels are increased some 16-fold on CD20++ target cells relative to the wild type CD20+ Raji cells
(80) The term “−/−” in relation to “−/− cell” is intended to mean a target cell in which the antigen/receptor is not expressed, i.e. wherein the relevant gene has been knocked-out (invalidated) to mute the expression of the antigen/receptor in question. The terminology is used interchangeably herein with “T−”.
(81) Consequently, the cells no longer express detectable levels of the specific antigen recognized by the antibody since the gene encoding the specific antigen has been rendered nonfunctional. In the context of present invention this may be seen as a control target cell.
(82) The term “E” is intended to mean “effector cells” and particularly effector cells according to the invention. The term “effector cell” is intended to mean any cell of any type that actively responds to a stimulus and effects some change (brings it about). One such example is cytokine-induced killer cells, strongly productive cytotoxic effector cells that are capable of lysing tumor cells. In a further example and in the context of present invention an effector cell is intended to mean any cell having Fc gamma receptors (FcγR or FCGR) on the surface of said cell which bind the Fc region of an antibody, wherein the antibody itself is specifically capable of binding to a target cell.
(83) The term “T” is intended to mean a “target cell”, i.e. any cell having a specific receptor/antigen that reacts with a specific hormone, antigen, antibody, antibiotic, sensitized T cell, or other substance. In relation thereto the term “(T+)” is intended to mean antigen positive target cells and consequently a cell expressing an antigen on its surface and allowing for binding of an antibody. In contrast, the term “(T−)” is intended to mean an antigen negative target cells (control target cell) and consequently a cell not expressing an antigen on its surface and thus not capable of reacting with an antibody. Put differently, antigen −/− cells (or T− cells) do not express detectable levels of the specific antigen recognized by the antibody that is being tested for ADCC activity since the gene encoding the specific antigen has been rendered nonfunctional. Specifically, the target cells used according to the invention are the same type of cells which is in contrast to known methods which usually employ one cell type as the T+ cell and employs another cells type as the T− cell. Put differently, a homologous control target cells that is exactly the same cell identical in all respects as the antigen positive target (T+) cell except that it does not express the specific antigen recognized by the antibody being assayed. As mentioned above, this is in contrast to the use of a T-cell (T lymphocyte), for example, that is often used as a control target cell for the quantification of ritiximab activity using a CD20 expressing B-cell target cells.
(84) The term “NHS” is intended to mean Normal Human Serum in e.g. a biological sample.
EXAMPLES
Example 1: Establishment of an Engineered Effector Cell Line
(85) In order to establish a reporter-gene construct that responds optimally to ligation of the FcγRIIIa receptor (CD16), a series of constructs consisting of variants of the NFAT, NFkB, AP1, CREB, and STAT recognition sequences (4-6) with different spacing sequences were developed in silico. The corresponding oligonucleotides for these constructs were synthesized and tested in transient transfection experiments, using the human T-cell line Jurkat, for their ability to drive transcription of the firefly luciferase (FL) reporter-gene from a minimal SV40 promoter following induction with interferon alpha & gamma (100 IU/ml), TNFα (100 ng/ml), dibutyryl cAMP (100 μM), lonomycin (500 mM), and PMA (10 ng/ml), either alone or in combination. These functional reporter-gene constructs were then tested in an ADCC reaction in the presence of Jurkat and Raji cells at a 1:1 ratio and rituximab (500 ng/ml). The results of these experiments were used to design a synthetic chimeric promoter sequence (
Example 2.1: Establishment of an Engineered Target Cell Line Expressing High Constant Levels of CD20 at the Cell Surface
(86) The gene encoding CD20 was invalidated in the B-cell line Raji (ATCC® CCL-86) using CRISPR-Cas9 genome editing (7). Briefly, a guide RNA sequence (
(87) CD20−/− Raji cells were then transfected with a CD20 expression vector (pUNO1-CD20) using the FuGENE HD transfection reagent (Promega Catalogue No E2311). Positive clones were enriched using fluorescent activated cell sorting and a FITC labelled anti-CD20 monoclonal antibody (FAB4225F, R & D Systems). Stable clones were isolated and characterized for ADCC activity in the presence of effector cells and rituximab and then sub-cloned. A suitable sub-clone was isolated, characterized and propagated giving rise to the CD20++ target cell line (
Example 2.2: Establishment of the Optimal E:T Ratio
(88) Varying concentrations of iLite® effector cells (E) were incubated with varying concentrations of CD20++ target cells (T) in order to determine the optimal effector target cell ratio (E:T) for the quantification of the ADCC activity of rituximab (
(89) Vials of iLite® effector cells and vials of CD20++ target cells were frozen separately using standard techniques. Upon thawing, effector cells and target cells were mixed at E:T ratios ranging from 24:1 to 2:1 and incubated for 4 hours in a 96-well white sided microtiter plate (Perkin Elmer 6005181) in the presence of increasing concentrations of rituximab in RPMI 1640 culture medium+10% fetal bovine serum (FBS). FL activity was then determined using the Dual Glo (Promega 22920) dual luciferase substrates and light emission was quantified in a luminometer (GloMax, Promega) and expressed as relative luciferase units (RLU). Results are presented as in the form of a 4 parametric logistic (4PL) plot as shown in
Example 2.3: Quantification of the ADCC Activity of Rituximab in the Presence of Human Serum
(90) The presence of human serum in an ADCC assay causes a concentration dependent increase the reporter gene activity of the effector cells in the absence of the therapeutic antibody due to non-specific binding of the IgG present in human serum to the surface of the target cells. The availability of homologous target cells in which the specific drug target has been invalidated by genome editing provides a means of estimating the level of non-specific activation in the presence of the target negative cells and a given concentration of human serum that can be subtracted from that observed with the homologous cells expressing the specific drug target in the presence of the same concentration of human serum. The non-specific interaction of human serum with the target cells is of low affinity that does not change significantly the slope of the 4PL curve observed with the interaction of the therapeutic antibody and the specific target cells (
(91) Vials of iLite® effector cells and vials of CD20++ target cells were thawed, and effector cells and target cells were mixed at an E:T ratio of 3:1 and incubated for 4 hours in a 96-well white sided microtiter plate (Perkin Elmer 6005181) in the presence of increasing concentrations of rituximab in RPMI 1640 culture medium+10% fetal bovine serum (FBS) either in the presence or absence of a 1/20 final dilution of a pool of normal human serum (NHS). FL activity was then determined using the Dual Glo (Promega 22920) dual luciferase luciferase substrates and light emission was quantified in a luminometer (GloMax, Promega) and expressed as relative luciferase units (RLU). Results are presented in the form of a 4 parametric logistic (4PL) plot as shown in
(92) In order to compensate for non-specific activation of the reporter gene in the presence of a given concentration of human serum the effector cell signal observed in the presence of CD20−/− negative target cells at a given concentration of rituximab was subtracted from the signal observed in the presence of the effector cells and the CD20++ target cells at the same concentration of rituximab according to the formula [(E+T++Drug+NHS)−(E+T−+NHS)+(E+T+)]/E+T+, or [(E+T++NHS)−(E+T−+NHS)+(E+T+)]/E+T+, wherein (E)=effector cells, (T+)=antigen positive target cells, (T−)=antigen negative target cells, and NHS=normal human serum sample, in order to obtain a normalized dose-response curve for the ADCC activity of rituximab (
(93) Effector cells & target cells frozen together in a single vial at the optimal E:T ratio of 3:1 when thawed and incubated with rituximab under the same conditions as effector and target cells frozen separately gave similar results to those obtained with cells frozen separately thus providing a more convenient format that confers a considerable time saving.
Example 3: Establishment of an Engineered Target Cell Lines Expressing High Constant Levels of erbB2 at the Cell Surface
(94) The gene encoding erbB2 was invalidated in HEK293 cells (ATCC® CRL-1573) and SKBR3 cells (ATCC® HTB-30) using CRISPR-Cas9 genome editing (7). Briefly a guide RNA sequence (
(95) HEK293−/− cells and SKBR3−/− cells were then transfected with an ERBB2 expression vector (pUNO1-ERBB2) using the FuGENE HD transfection reagent (Promega Catalogue No E2311). Positive clones were enriched using fluoresce activated cell sorting and a FITC labelled anti-erbB2 monoclonal antibody (Abcam, ab31891). Stable clones were isolated and characterized for ADCC activity in the presence of the iLite® effector cells and Herceptin and then sub-cloned. Suitable sub-clones were isolated, characterized and propagated, giving rise to the erbB2++ KEK293 & erbB2++ SKBR3 target cell lines.
(96) The response of iLite® effector cells & erbB2++ HEK293 target cells, (expressed as fold induction relative to the control sample without Herceptin), was found to be significantly greater than that of the NFAT effector cells & wild type SKBR3 target cells (
(97) Vials of iLite® effector cells and vials of erbB2++ HEK293 & erbB2++ SKBR3 target cells were frozen separately using standard techniques. Upon thawing, effector cells and target cells were mixed at E:T ratios ranging from 24:1 to 2:1 and incubated for 6 hours in a 96-well white sided microtiter plate (Perkin Elmer 6005181) in the presence of increasing concentrations of Herceptin in RPMI 1640 culture medium+10% fetal bovine serum (FBS). FL activity was then determined using the dual luciferase substrate and light emission was quantified in a luminometer (GloMax, Promega) and expressed as relative luciferase units (RLU). Results are presented as in the form of a 4 parametric logistic (4PL) plot as shown in
Example 4: Establishment of an Engineered Target Cell Line Expressing High Constant Levels of mTNFα at the Cell Surface
(98) Quantification of the ADCC activity of TNFα antagonists requires a target cell expressing membrane bound TNFα. Although TNFα is initially membrane bound it is subsequently cleaved by ADAM17 (TACE) protease. Thus, in order to establish a cell line that expresses membrane-bound non-cleavable TNFα site-directed mutagenesis was used to mutate the protease cleavage suite in order to change amino acids AV to LL at position 76-77 of the gene encoding human TNFα (
(99) Non-cleavable TNFα expressed on the surface of a cell will bind, however, to the TNFαRII receptor present on the surface of neighboring cells resulting in cell death and rendering the establishment of a permanent cell line difficult. Thus, or order to obviate such difficulties the TNFαRII receptor was invalidated using genome editing.
(100) The gene encoding the TNFαRII receptor was invalidated in HEK293 cells (ATCC® CRL-1573) using CRISPR-Cas9 genome editing (7). Briefly two guide RNA sequences (
(101) Stable clones were isolated and characterized for ADCC activity in the presence the iLite® effector cells and Remicade (infliximab) and then sub-cloned. A suitable sub-clone was isolated, characterized and propagated giving rise to the mTNFα target cell line mTNF6.10 (
(102) Vials of iLite® effector cells and vials of mTNF++ target cells target cells were frozen separately using standard techniques. Upon thawing, effector cells and target cells were mixed at E:T ratios ranging from 24:1 to 2:1 and incubated for 6 hours in a 96-well white sided microtiter plate (Perkin Elmer 6005181) in the presence of increasing concentrations of Remicade in RPMI 1640 culture medium+10% fetal bovine serum (FBS). FL activity was then determined using the dual luciferase substrate and light emission was quantified in a luminometer (GloMax, Promega) and expressed as relative luciferase units (RLU). Results are presented as in the form of a 4 parametric logistic (4PL) plot as shown in
(103) Patients treated with therapeutic antibodies often respond in a different manner to therapy and some patients also develop anti-drug antibodies (ADA) that can negatively impact their ability to respond to therapy. Thus, there is a need to monitor individual patients over time both for circulating levels of the therapeutic antibody and for anti-drug antibodies. Furthermore, since the activity of a number of therapeutic antibodies is mediated in part by antibody-dependent cell-mediated cytotoxicity there is a need to monitor patients for the ADCC activity of the therapeutic antibody. This is rendered difficult, however, due to the high concentration of IgG present in human serum that can bind to the surface of the target cells resulting in a nonspecific increase the activity of the effector cells that can confound the results obtained.
(104) The use of homologous target negative cells in which the specific drug target has been invalidated by genome editing provides a means of estimating the level of non-specific activation in the presence of the target negative cells and a given concentration of human serum that can be subtracted from that observed with the homologous cells expressing the specific drug target in the presence of the same concentration of human serum using the following formula: [(E+T++Drug+NHS)−(E+T−+NHS)+(E+T+)]/E+T+, or [(E+T++NHS)−(E+T−+NHS)+(E+T+)]/E+T+, wherein (E)=effector cells, (T+)=antigen positive target cells, (T−)=antigen negative target cells, and NHS=normal human serum sample. This technique has been use to quantity the ADCC activity of the TNFα antagonist infliximab in samples of serum from patients with Crohn's disease (Table 1). A reading for Target ++/Target −/− cells of 5.0 or greater was considered to be positive from the results obtained from the control samples with and without a 1/20 final dilution of normal human serum (Table 1). Thus, samples 1, 3, and 9 were found to exhibit ADCC activity using this technique (Table 1). Samples 1, 3, and 9 were also found to contain detectable levels of infliximab using either an ELISA (Matriks Bioteck, TR-QS-INF) or bioassay (8) as described previously (Table 1).
(105) TABLE-US-00002 TABLE 1 Quantification of ADCC Activity of Infliximab in Patients with Crohn's Disease. Infliximab ADCC Reporter Gene Assay Residual Drug ADA Target Target Bioassay Bioassay Negative Positive Target+/ Serum (% of Drug ELISA (% of Drug ELISA Sample Cells (RLU) Cells (RLU) Target− Sample/Control Activity) (μg/ml) activity) (μg/ml) No Hum. Serum 1122 4264 3.80 0.33 0% 0.026 0% 0 Hum. Serum 2607 12830 4.92 1.00 0% 0.026 14% 0 No Hum. Serum + Infliximab 1382 39370 28.49 3.07 100% 3 80% 0.7 Hum. Serum + Infliximab 1902 39075 20.55 3.05 100% 3 79% 0.7 Patient Sample 1 1975 36750 18.61 2.86 100% 2.58 90% 0 Patient Sample 2 3490 17315 4.96 1.35 33% 0.033 80% 0 Patient Sample 3 2032 11740 5.78 0.92 40% 0.032 83% 0 Patient Sample 4 1607 7422 4.62 0.58 0% 0.025 89% 0 Patient Sample 5 3619 15380 4.25 1.20 0% 0.027 81% 0 Patient Sample 6 1456 6900 4.74 0.54 17% 0.026 79% 0 Patient Sample 7 1826 7228 3.96 0.56 17% 0.025 0% 0.554 Patient Sample 8 1189 4756 4.00 0.37 0% 0.025 0% 0.515 Patient Sample 9 2494 51750 20.75 4.03 100% 0.97 79% 0 Patient Sample 10 1605 4882 3.04 0.38 17% 0.025 84% 0 Patient Sample 11 1721 7670 4.46 0.60 33% 0.027 81% 0 Patient Sample 12 1312 4724 3.60 0.37 17% 0.025 83% 0 Patient Sample 13 2260 8855 3.92 0.69 0% 0.032 80% 0 Patient Sample 14 2736 9099 3.33 0.71 33% 0.024 21% 0.503 Patient Sample 15 3063 12785 4.17 1.00 0% 0.026 91% 0 Patient Sample 16 1984 6331 3.19 0.49 0% 0.025 90% 0 Patient Sample 17 1452 5628 3.88 0.44 0% 0.025 93% 0 Patient Sample 18 1379 4492 3.26 0.35 0% 0.024 90% 0 Patient Sample 19 1428 5981 4.19 0.47 0% 0.029 87% 0 Patient Sample 20 1250 4300 3.44 0.34 0% 0.025 51% 0.509
(106) No ADCC activity was detected in samples 7, 8, 14 & 20 that were found to contain anti-infliximab antibodies determined using a commercially available ELISA (Matriks Bioteck reference TR-ATIv4). Furthermore, the anti-infliximab antibodies detected by ELISA were shown to be neutralizing using a bioassay (8)
(107) The ADCC activity of adalimumab and etanercept was also quantified in samples of serum from patients with rheumatoid arthritis (Table 2). Thus, samples 7 to 11 and sample 17 from patients treated with etanercept were found to contain readily detectable ADCC activity (Table 2). Similarly, samples 4, 5, 8, 12, 13, 14, 17, & 19 from patients treated with adalimumab were also found to contain readily detectable ADCC activity (Table 2).
(108) TABLE-US-00003 TABLE 2 Quantification of ADCC Activity of Etanercept & Adalimumab in Patients with Rheumatoid Arthritis ADCC Reporter Gene Assay Target Target Serum Negative Positive Target+/ Sample/ Sample Cells (RLU) Cells (RLU) Target− Control Etanercept No Hum. Serum 1428 4386 3.07 0.51 Hum. Serum 2251 8541 3.79 1.00 No Hum. Serum + 1610 22755 14.13 2.66 Etanercept Hum. Serum + 1810 23655 13.07 2.77 aEtanercept Patient Sample 1 2843 8235 2.90 0.96 Patient Sample 2 1275 4019 3.15 0.47 Patient Sample 3 1255 3082 2.46 0.36 Patient Sample 4 1195 3853 3.22 0.45 Patient Sample 5 1347 5075 3.77 0.59 Patient Sample 7 1583 11718 7.40 1.37 Patient Sample 8 1384 9794 7.08 1.15 Patient Sample 9 1595 11960 7.50 1.40 Patient Sample 10 1297 5803 4.47 0.68 Patient Sample 11 1768 8445 4.78 0.99 Patient Sample 12 1346 4642 3.45 0.54 Patient Sample 13 1579 5600 3.55 0.66 Patient Sample 14 1182 3240 2.74 0.38 Patient Sample 15 1238 4742 3.83 0.56 Patient Sample 16 2303 6993 3.04 0.82 Patient Sample 17 2061 22040 10.69 2.58 Patient Sample 18 1963 5394 2.75 0.63 Patient Sample 19 3275 8863 2.71 1.04 Patient Sample 20 2460 7338 2.98 0.86 Adalimumab No Hum. Serum 1400 4300 3.07 0.50 Hum. Serum 2689 11310 4.21 1.00 No Hum. Serum + 1700 30000 17.65 2.65 adalimumab Hum. Serum + 2200 27000 12.27 2.39 adalimumab Patient Sample 1 1733 6877 3.97 0.61 Patient Sample 2 4476 18495 4.13 1.64 Patient Sample 3 3672 14415 3.93 1.27 Patient Sample 4 2527 22375 8.85 1.98 Patient Sample 5 2642 18495 7.00 1.64 Patient Sample 7 1768 6596 3.73 0.58 Patient Sample 8 1935 21785 11.26 1.93 Patient Sample 9 1397 4398 3.15 0.39 Patient Sample 10 1864 6703 3.60 0.59 Patient Sample 11 1933 5499 2.84 0.49 Patient Sample 12 1907 11670 6.12 1.03 Patient Sample 13 1867 12490 6.69 1.10 Patient Sample 14 2014 14520 7.21 1.28 Patient Sample 15 2251 8091 3.59 0.72 Patient Sample 16 1454 5670 3.90 0.50 Patient Sample 17 1583 27730 17.52 2.45 Patient Sample 18 2210 7537 3.41 0.67 Patient Sample 19 2091 17155 8.21 1.52 Patient Sample 20 1567 5696 3.63 0.50!
Example 5: Establishment of an Engineered Target Cell Line Expressing High Constant Levels of EGFR at the Cell Surface
(109) EGFR negative HEK293 cells (ATCC® CRL-1573) cells were transfected with a human EGFRa expression vector (pUNO1-hefgr, Invivogen) using the FuGENE HD transfection reagent (Promega Catalogue No E2311). Positive clones were enriched using fluoresce activated cell sorting and a FITC labelled anti-EGFR monoclonal antibody (R & D Systems, FAB10951P). Stable clones were isolated and characterized for ADCC activity using the iLite® effector cells and cetuximab and then sub-cloned. A suitable sub-clone was isolated, characterized, and propagated giving rise to the EGFR++ target cell line (
(110) The response of iLite® effector cells & EGFR++ HEK293 target cells, (expressed as fold induction relative to the control sample without cetuximab), as shown in
(111) Vials of iLite® effector cells and vials of EGFR++ target cells target cells were frozen separately using standard techniques. Upon thawing, effector cells and target cells were mixed at E:T ratios ranging from 24:1 to 2:1 and incubated for 6 hours in a 96-well white sided microtiter plate (Perkin Elmer 6005181) in the presence of increasing concentrations of Remicade in RPMI 1640 culture medium+10% fetal bovine serum (FBS). FL activity was then determined using the dual luciferase substrate and light emission was quantified in a luminometer (GloMax, Promega) and expressed as relative luciferase units (RLU). Results are presented as in the form of a 4-parametric logistic (4PL) plot as shown in
(112) In specific embodiments, the invention also relates to the following items:
(113) Items:
(114) 1. An effector cell having a recombinant reporter gene or construct that is activated by NF-AT, AP1, NFkB, and STAT5. 2. A recombinant target cell in which the endogenous target to which an antibody is specific is invalidated. 3. A recombinant target cell in which the expression of the target to which an antibody is specific is enhanced. 4. A regulatory sequence which binds NF-AT, AP1, NFkB, and STAT5, comprising the nucleotide sequence of SEQ ID NO.:1. 5. A kit, comprising: an effector cell having a recombinant reporter gene assay or construct that is activated by NF-AT, AP1, NFkB, CREB, and STAT5; a recombinant target cell in which the endogenous target to which an antibody is specific is invalidated (dependent claims, CD20, mTNFα, erbB2 (SKBR3 & HEK293), EGFR); and recombinant target cell in which the expression of the target to which an antibody is specific is enhanced. (dependent claims, CD20, mTNFα, erbB2 (SKBR3 & HEK293), EGFR) 6. A method for compensating for the non-specific increase in the reporter-gene signal in the presence of human serum by the subtraction of the signal obtained in the presence of effector cells and target cells, in which the drug target has been invalidated, from the signal obtained in the presence of effector cells and target cells that express the drug target. 7. A method for quantifying the ADCC activity ex vivo in clinical samples from patients treated with therapeutic antibodies. Moreover, in further specific embodiments present invention also relates to the following articles: 1. A polynucleotide comprising a cis-acting regulatory sequence operably linked to a downstream promotor, wherein one or more of NF-AT, AP1, NFkB, STAT1, STAT3 and STAT5 is capable of binding to said cis-acting regulatory sequence. 2. The polynucleotide according to article 1, characterized in that NF-AT, AP1, NFkB, and STAT5 are all capable of binding to said cis-acting regulatory sequence. 3. The polynucleotide according to any of the preceding articles, wherein the promotor is operable linked to an open read frame sequence encoding a first reporter protein. 4. The polynucleotide according to any of the preceding articles, wherein the reporter is an enzyme 5. The polynucleotide according to any of the preceding articles, wherein the enzyme is e.g. a luciferase. 6. The polynucleotide according to any of the preceding articles, wherein the enzyme is fluorescent protein. 7. The polynucleotide according to any of the preceding articles comprising a nucleotide sequence having at least about 70% sequence identity, such as e.g. at least about 75% sequence identity, such as e.g. at least about 80% sequence identity, such as e.g. at least about 85% sequence identity, such as e.g. at least about 90% sequence identity, such as e.g. at least about 95% sequence identity, such as e.g. at least about 98% sequence identity, such as e.g. at least about 99% sequence identity to SEQ ID NO.: 1 or a DNA sequence identical to SEQ ID NO.: 1 8. A vector construct comprising the polynucleotide according to any of the preceding articles. 9. The vector according to article 8, wherein said vector is a plasmid or viral vector. 10. A cell comprising the vector according to any of articles 8-9. 11. The cell according to article 10, wherein the cell is a mammalian cell. 12. The cell according to article 10 or 11, wherein said vector is episomal or integrated in the genome of said cell. 13. The cell according to any of articles 10-12, wherein the cell further expresses a second reporter protein which different from the first reporter protein. 14. The cell according to any of articles 10-13, wherein the cell is a Jurkat, SKBR3, or HEK293 cells. 15. A kit, comprising: i) a cell according to any of claims 10-14; ii) a cell in which the endogenous target to which an antibody is specific is invalidated (mutated); and iii) a cell in which the expression of the target to which an antibody is specific is enhanced. 16. The kit according to article 15, wherein the target that is invalidated in the target cells in ii) comprises one or more of CD20, mTNFα, erbB2, EGFR. 17. The kit according to article 15, wherein the target that is enhanced in the target cells in iii) comprises one or more of CD20, mTNFα, erbB2, EGFR. 18. The kit according to any of articles 15-17, wherein the kit comprises two vials. 19. The kit according to any of articles 15-18 wherein the cells in i) and iii) are present in one and the same vial at the optimal E:T ratio 20. The kit according to any of articles 15-19, wherein the ratio between the cell in i) and the target cell in iii) (E:T ratio) is in range from about 24:1 to about 2:1, or e.g. about 6:1, or about e.g. 3:1, or about e.g. 1.5:1. 21. A method for quantifying the ADCC activity ex vivo in clinical samples from patients treated with therapeutic antibodies, the method comprising the steps of; a) contacting a sample obtained from a patient undergoing treatment comprising administration of an antibody, with target cells ii) in article 15, b) subtracting the signal obtained in the presence of cells i), in which the drug target has been invalidated, from the signal obtained in the presence of effector cells i) and target cells iii), c) determining the ADCC activity on the basis of the signal relationship as measured in a) and b). 22. The method according to article 21, wherein a positive result for a serum sample (i.e. detectable ADCC activity) is present when the signal relationship for Effector cells i) & Target ++ cells iii)/Effector cells i) & Target −/− cells ii)≥1 and wherein a negative result for a serum sample (i.e. no detectable ADCC activity) is present when the value for Effector cells i) & Target ++ cells iii)/value for Effector cells i) & Target −/− cells ii)≤1. 23. A method for compensating for the non-specific increase in the reporter-gene signal in the presence of human serum, the method comprising: subtracting the signal obtained in the presence of cells i), from the signal obtained in the presence of effector cells i) and target cells iii) in article 15, that express the drug target. 24. A method according to article 23 for eliminating serum samples that exhibit activity that is not related to ADCC activity specific to the antibody under investigation when Effector cells & Target negative cells >1
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