METHODS FOR IDENTIFYING INDIVIDUALS SUFFERING FROM A CELLULAR ABNORMALITY

Abstract: The invention relates to the identification of complexes of HLA-C-clone 10 and MAGE-1 derived peptides on the surfaces of abnormal cells. The therapeutic and diagnostic ramifications of this observation are the subject of the invention.

Description: METHOD FOR IDENTIFYING INDIVIDUALS SUFFERING FROM A CELLULAR ABNORMALITY RELATED APPLICATIONS This application is a continuation-in-part of copending application Serial No. 08/195,186 filed February 14, 1994, which is a continuation-in-part of U.S. Application Serial No. 08/008,446, filed January 22, 1993. It is also a continuation-in-part of Serial No. 08/196,630 filed February 15, 1994. FIELD OF THE INVENTION This invention relates to various therapeutic methodologies derived from the recognition that certain abnormal cells present complexes of HLA-Cw * 1601 (previously referred to as HLA-C-clone 10) (Bodmer et al., Tissue Antigens 44: 1 (1994)) and peptides derived from a molecule referred to as MAGE-1 on their surfaces. In addition, it relates to the ability to identify those individuals diagnosed with conditions characterized by cellular abnormalities whose abnormal cells present this complex. BACKGROUND AND PRIOR ART The process by which the mammalian immune system recognizes and reacts to foreign or alien materials is a complex one. An important facet of the system is the T cell response. This response requires that T cells recognize and interact with complexes of cell surface molecules, referred to as human leukocyte antigens ("HLA"), or major histocompatibility complexes ("MHCs"), and peptides. The peptides are derived from larger molecules which are processed by the cells which also present the HLA/MHC molecule. See in this regard Male et al., Advanced Immunology (J.P. Lipincott Company, 1987), especially chapters 6-10. The interaction of T cell and complexes of HLA/peptide is restricted, requiring a T cell specific for a particular combination of an HLA molecule and a peptide. If a specific T cell is not present, there is no T cell response even if its partner complex is present. Similarly, there is no response if the specific complex is absent, but the T cell is present. This mechanism is involved in the immune system's response to foreign materials, in autoimmune pathologies, and in responses to cellular abnormalities. Recently, much work has focused on the mechanisms by which proteins are processed into the HLA binding peptides. See, in this regard, Barinaga, Science 257: 880 (1992); Fremont et al. , Science 257: 919 (1992); Matsu ura et al., Science 257: 927 (1992); Latron et al. , Science 257: 964 (1992). The mechanism by which T cells recognize cellular abnormalities has also been implicated in cancer. For example, in PCT application PCT/US92/04354, filed May 22, 1992, published on November 26, 1992, as O92/20356 and incorporated by reference, a family of genes is disclosed which are processed into peptides which, in turn, are expressed on cell surfaces, and can lead to lysis of the tumor cells by specific CTLs. These genes are referred to as the "MAGE" family, and are said to code for "tumor rejection antigen precursors" or "TRAP" molecules, and the peptides derived therefrom are referred to as "tumor rejection antigens" or "TRAs". See Traversari et al., Immunogenetics 35: 145 (1992); van der Bruggen et al., Science 254: 1643 (1991), for further information on this family of genes. In U.S. patent application Serial Number 938,334, the disclosure of which is incorporated by reference, nonapeptides are taught which bind to the HLA-A1 molecule. The reference teaches that given the known specificity of particular peptides for particular HLA molecules, one should expect a particular peptide to bind one HLA molecule, but not others. This is important, because different individuals possess different HLA phenotypeε. As a result, while identification of a particular peptide as being a partner for a specific HLA molecule has diagnostic and therapeutic ramifications, these are only relevant for individuals with that particular HLA phenotype. There is a need for further work in the area, because cellular abnormalities are not restricted to one particular HLA phenotype, and targeted therapy requires some knowledge of the phenotype of the abnormal cells at issue. In a patent application filed on December 22, 1992 in the name of Boon-Falleur et al., entitled "Method For Identifying Individuals Suffering From a Cellular Abnormality, Some of Whose Abnormal Cells Present Complexes of HLA-A2/Tyrosinaεe Derived Peptides and Methods for Treating said Individuals", the complex of the title was identified as being implicated in certain cellular abnormalities. The application does not suggest, however, that any other HLA molecules might be involved in cellular abnormalities. The prior presentation of MAGE-1 by an HLA-A molecule, as disclosed supra. also does not suggest that the protein can be presented by another HLA molecule. Thus, it is surprising that the very MAGE molecule presented by HLA-Al has now been shown to be presented by HLA-Cw * 1601. While the prior research is of value in understanding the phenomenon, it in no way prepares the skilled artisan for the disclosure which follows. BRIEF DESCRIPTION OF THE FIGURE Figure 1 depicts experiments involving transfection of COS-7 with coding sequences for MAGE-1 and HLA-Cw * 1601. Figure 2A sets forth results of a 51 Cr release assay using MZ2 cells infected with Epstein Barr Virus, which had been incubated with the peptide of SEQ ID NO: 4, for 30 minutes. The effector cells were from CTL 81/12. Figure 2B parallels figure 2A, the only difference being that the effector was CTL 82/35. DETAILED DESCRIPTION OF PREFERRED EMBODIMENTS Example 1 In the experiments which follow, various melanoma cell lines were used. These were obtained from melanoma patients identified as MZ2 and LB73. Cell lines MZ2-MEL.43, MZ2-MEL- 3.0, and MZ2-MEL 3.1 are cloned εublines of MZ2-MEL, and are described in Van den Eynde et al., Int. J. Cane. 44: 634 (1989), as well as PCT patent application WO92/20356 (Nov. 26, 1992), both disclosures being incorporated by reference and in their entirety herewith. Cell line LB73-MEL was derived from patient LB73 in the same manner as the other cell lines described herein. Samples containing mononuclear blood cells were taken from patient MZ2. A sample of the melanoma cell line MZ2- MEL.43 was irradiated, and then contacted to the mononuclear blood cell containing samples. The mixtures were observed for lysis of the melanoma cell lines, this lysis indicating that cytolytic T cells ("CTLs") specific for a complex of peptide and HLA molecule presented by the melanoma cells were present in the sample. The lysiε aεεay employed waε a chromium release assay following Herin et al., Int. J. Cancer 39:390-396 (1987), the discloεure of which is incorporated by reference. The asεay, however, is described herein. The target melanoma cells were grown in vitro, and then reεuεpended at 10 7 cells/ml in DMEM, supplemented with 10 mM HEPES and 30% FCS, and incubated for 45 minutes at 37°C with 200 μCi/ml of Na( 51 Cr)0 4 . Labelled cells were washed three timeε with DMEM, supplemented with 10 mM Hepes. These were then resuspended in DMEM supplemented with 10 mM Hepes and 10% FCS, after which 100 ul aliquots containing IO 3 cells, were distributed into 96 well microplates. Sampleε of PBLε were added in 100 ul of the same medium, and assays were carried out in duplicate. Plates were centrifuged for 4 minutes at lOOg, and incubated for four hourε at 37°C in a 5.5% of C0 2 atmoεphere. Plateε were centrifuged again, and 100 ul aliquotε of supernatant were collected and counted. Percentage of 51 Cr release waε calculated aε followε: % 51 Cr releaεe = (ER-SR1 x 100 (MR-SR) where ER iε obεerved, experimental 51 Cr releaεe, SR is εpontaneouε releaεe meaεured by incubating IO 3 labeled cells in 200 ul of medium alone, and MR iε maximum releaεe, obtained by adding 100 ul 0.3% Triton X-100 to target cells. Those mononuclear blood samples which showed high CTL activity were expanded and cloned via limiting dilution, and were screened again, using the same methodology. These experiments led to the isolation of several CTL clones from patient MZ2 including CTL clone "81/12". The experiment was repeated as described, using both cell line MZ2-MEL 3.0 and MZ2-MEL 3.1. The results indicated that clone 81/12 recognized both MZ2-MEL.43 and MZ2-MEL 3.0, but not MZ2-MEL 3.1. The antigen being recognized by 81/12 is referred to hereafter as ' "antigen Bb". Example 2 In view of prior work, as summarized supra , it was of interest to determine the HLA clasε 1 profile for patient MZ2. Thiε waε determined following standard methodologies, which are now set forth. To obtain cDNA clones coding for the genes of the HLA class 1 molecules of the patients, a cDNA library was prepared, starting with total mRNA extracted from cell line MZ2-MEL.43, using well known techniques not repeated here. The library was inserted into plasmid pcD-SRα, and then screened, using an oligonucleotide probe containing a sequence common to all HLA class 1 genes, i.e.: 5'-ACTCCATGAGGTATTTC-3' (SEQ ID NO: 1) One clone so identified waε clone IC4A7 which, upon sequencing, was found to be functionally equivalent, if not identical to, HLA-Cw * 1601, a well known human leukocyte antigen molecule. The sequence of the DNA coding for HLA- Cw * 1601 is given at, e.g. Cianetti et al., Immunogenetics 29: 80-91 (1989), where it was named HLA-C clone 10 and the sequence iε available under GENBANK accession number HUMMHCACA. An updated sequence is reported by Zemmour et al. , Immunogeneticε 37: 239-250 (1993), the disclosure of which iε incorporated by reference in itε entirety, aε iε Cianetti et al., supra. The Zemmour sequence is also available in the EMBL sequence bank. Example 3 It waε of intereεt to determine if the HLA molecule identified supra presented a mage derived tumor rejection antigen, and if the resulting complex of antigen and HLA molecule was recognized by a CTL clone of patient MZ2. . To determine this, recipient cells were transfected with cDNA coding HLA-Cw * 1601, and with one of MAGE-1, MAGE-2, or MAGE-3 cDNA. The MAGE-1 cDNA was inserted into plasmid pcDNA I/Amp, while MAGE-2 and MAGE-3 cDNA were inserted into plasmid pcD- SRα. Samples of recipient COS-7 cells were seeded, at 15,000 cells/well into tissue culture flat bottom microwells, in Dulbecco'ε modified Eagles Medium ("DMEM") supplemented with 10% fetal calf serum. The cells were incubated overnight at 31 ° C , medium was removed and then replaced by 30 μl/well of DMEM medium containing 10% Nu serum, 400 μg/ml DEAE-dextran, 100 μM chloroquine, and 100 ng of the subject plasmids (i.e., 100 ng of the IC4A7 clone, and 100 ng of the MAGE-cDNA plaεmid) . Following four hours of incubation at 37°C, the medium was removed, and replaced by 50 μl of PBS containing 10% DMSO. This medium was removed after two minuteε and replaced by 200 μl of DMEM supplemented with 10% FCS. Following this change in medium, COS cells were incubated for 48 hours at 37°C. Medium was then discarded, and 2000 cells of CTL clone 81/12 were added, in 100 μl of Iscove medium containing 10% pooled human serum. Supernatant was removed after 24 hours, and TNF content was determined in an assay on WEHI cells, as described by Traversari et al., Immunogenetics 35: 145-152 (1992), the diεcloεure of which is incorporated by reference. The results, set forth in Figure 1 demonstrate that a tumor rejection antigen, derived from MAGE-1 is presented by HLA-Cw * 1601, and iε recognized by CTL clone 81/12, whereas expreεεion of MAGE-2 and MAGE-3 doeε not lead to preεentation of the appropriate antigen. Ryaπiplp Λ Following the experimentε diεcuεεed εupra, additional work was carried out to determine the peptide which HLA- Cw * 1601 presented. MAGE-1 cDNA in expresεion vector pcDNA I/Amp was digested with restriction endonucleaseε NotI and SphI following the supplier's instructions, and then with exonuclease III. This treatment generated a series of progressive deletions of the MAGE-1 cDNA, starting at the 3' end. The deletion productε were ligated back into pcDNAI/Amp, and then electroporated into E. coli strain DHSαF'IQ, using well known techniques. The tranεformantε were εelected with ampicillin (50 ug/ml) , and εix hundred cloneε were obtained. The plasmid DNA was removed from each clone, and was then transfected into COS-7 cells, together with a vector which coded for HLA-Cw * 1601. The protocol used follows the protocols described above. The transfectants were then teεted in the TNF releaεe assay described in example 3. This permitted separation of positive and negative clones. The compariεon showed that one of the positive clones contained nucleotides 1-730 from the MAGE-1 gene, while a negative clone contained nucleotides 1- 706. The sequence of positive and negative cloneε waε compared, and a region of 16 amino acids was identified aε putatively containing the antigenic peptide. Thiε εequence is: Glu His Ser Ala Tyr Gly Glu Pro Arg Lys Leu Leu Thr Gin Aεp Leu (SEQ ID NO: 2) Based upon this sequence, a first set of experiments waε carried out where synthetic peptides were made, and tested for their ability to render COS-7 cells transfected with HLA- Cw*1601 capable of stimulating lysis. A positive 12 mer was identified, i.e.: Glu His Ser Ala Tyr Gly Glu Pro Arg Lys Leu Leu (SEQ ID NO: 3) Truncation of thiε 12 mer led to the identification of nonapeptide Ser Ala Tyr Gly Glu Pro Arg Lys Leu (SEQ ID NO: 4) aε the best stimulator of lysis. Half maximal lyεiε waε obεerved at a peptide concentrations of 10 nM. In experiments not presented herein, but set forth in Serial No. 08/196,630, filed February 15, 1994 and incorporated by reference herein, the peptide Ala Ala Arg Ala Val Phe Leu Ala Leu (SEQ ID NO: 5) waε also found to be preεented by HLA-Cw * 1601, and lyεed by variouε cytolytic T cell clones, such as CTL 82/82. Example 5 The identification of two separate peptides being presented by HLA-Cw * l601 suggested the desirability of an aεεay to determine expreεεion of HLA-Cw * 1601 in patientε. Serological testing is not a viable option because antibodies to HLA-Cw * 1601 are not available. Polymerase chain reaction ("PCR"), however, provided an alternative. Development of a viable, uεeful PCR aεsay for expression of HLA-Cw * 1601 baεed upon a neεted primer system follows. The model described generally by Browning et al., Proc. Natl. Acad. Sci. USA 90: 2842 (1993), was used. This reference discusses the use of oligonucleotide primers, the 3' ends of which are specific for the coding sequence for the HLA molecule. Using this approach, primers: 5'-CAAGCGCCAGGCACAGA-3' (SEQ ID NO: 6) and 5'-GCCTCATGGTCAGAGACGA-3' (SEQ ID NO: 7) were synthesized. To test the method, variouε cell εampleε from patientε were uεed. Total RNA waε extracted, using the well known guanidine isothiocyanate method of Daviε et al. , Baεic Methods in Molecular Biology (Elsevier, New York, 1986), pp. 130. For cDNA synthesis, 2 ug of RNA was diluted with water, and 4 ul of 5x reverse transcriptase buffer. Added were 1 ul each of 10 mM dNTP, 2 ul of a 20 uM solution of oligo (dT), 20 U of RNaεin, 2 ul of 0.1M dithiothreitol, and 200 U of MoMLV reverse transcriptase, in a 20 ul reaction volume. The mixture was " incubated for 60 minutes at 42°C. To amplify the cDNA, 1% of the cDNA reaction was supplemented with 5 ul of lOx thermostable DNA polymerase buffer, 1 ul each of 10 mM dNTP, 0.5 ul each of 80 uM solution of primers (SEQ ID NO: 6 and 7), 1U of DynaZyme, and water to a final volume of 50 ul. The PCR was carried out for 30 cycles (one minute at 95°C, one minute at 62 ° C, two minutes at 72°C). The products were diluted to 1/500. Then, a second PCR was carried out, using 1 ul of diluted PCR product, supplemented with 5 ul of lOx thermostable DNA polymerase buffer, 1 ul each of 10 mM dNTP, 0.5 uM each of a 80 uM solution of primers: 5'-GAGTGAGCCTGCGGAAC-3' (SEQ ID NO: 8) and 5'-CCTCCAGGTAGGCTCTCT-3' (SEQ ID NO: 9) , and 1U of DynaZyme. SEQ ID NO: 8 and SEQ ID NO: 9 represent nucleotide sequences located internally to the first set of primers, i.e., SEQ ID NOS: 6 and 7. Water waε added to 50 ul, and 20 cycles of PCR were carried out (one minute 95 ° C; one minute at 65°C; two minutes at 72°C). The PCR productε were then εize fractionated on a 1.5% agaroεe gel in TAE buffer. This methodology waε utilized in two separate εetε of experimentε. In the firεt of theεe, transfectantε, prepared aε deεcribed supra and lyεed by cytolytic T cell cloneε against either SEQ ID NO: 4 or SEQ ID NO: 5 complexed to an HLA molecule were tested. All positive transfectantε were found to present the HLA-Cw * 1601 molecule on their surfaceε. Any εample which generated no PCR productε waε conεidered negative. In further experimentε uεing the negative samples, the PCR protocol utilized above was employed a second time but the primers were based upon sequences common to all HLA-C sequences. See Zemmour et al. , J. Exp. Med. 176: 937 (1992), incorporated by reference herein. The negative samples proved to be cells expressing different, i.e., non HLA-Cw * 1601 HLA-C subtypes. Example 6 In the second set of experimentε, the ability of cells, either PBL or tumor, to present peptides via HLA-Cw * 1601, waε tested. To do this, cells taken from patients were washed in Hank's solution, and resuspended at 5xl0 6 cells/ml. They were then fixed by treating them for 10 minutes, at room temperature, with 1% paraformaldehyde. Following fixation, they were washed, twice, in Hank's solution, and resuspended in Iscove's medium with 10% human serum added. The cells were then distributed in 96V-bottom wells, at either 3xl0 4 PBLs or 1x10* tumor cells, and pulsed with varying concentrations of peptides. After two hourε of incubation at 37 ° C, the cells were washed, twice, before CTLε (1500, 100 ul Iεcove medium, 10% human serum, 20 U/ml recombinant human IL- 2) were added, and TNF release from WEHI-164 cells measured. See, e.g., Traversari et al., Immunogenetics 35: 145 (1992), incorporated by reference for particularε of the aεεay. The effector cellε in the assay were from CTL 82/35. The results are summarized in the following table. TNF was only produced in the presence of target cellε, derived from patientε who had tested positive for HLA-Cw * 1601, based upon the PCR asεay, set forth supra, which had been pulsed with peptide. The experiments, summarized in Table 1, used cellε which had been fixed with glutaraldehyde, pulεed with the peptide, and then tested for recognition by cytolytic T cell line CTL 82/35. As the table εhowε, TNF waε produced only in the presence of peptide pulsed target cellε, which had tested poεitive for HLA-Cw * l601 in the PCR aεεay diεcussed supra. TABLE 1 Patient HLA-Cw 1601 Peptide PCR Presentation To CTL 82/35 MZ2 + LB17 + LB678 + + LB708 + + MI4024 >/l + + LB73 LY-2 SKI9 SK37 Examo] .e 7 Approximately 8% of samples (7 of 99) were poεitive for thiε HLA type, and five of the poεitiveε were tested for CTL lysiε; aε deεcribed supra. All provoked lysis, as indicated in Table 1. In contrast, sampleε from four patientε who were not poεitive for HLA-Cw * 1601, did not provoke lyεiε by CTLs. Example 8 In another experiment, MZ2 lymphoblastoid cells, infected with Epstein Barr Virus, were used in a sl Cr release asεay. The infected cellε, referred to aε "MZ2-EBV" , were 51 Cr labelled, and then incubated for 30 minuteε in the preεence of MAGE-1 peptide, at concentrations ranging from 1 to 5000 nM. CTLs (either CTL 81/12 or CTL 82/35) were added at an effector/target ratio of 3:1. Chromium release was measured after four hours. The results are shown in figures 2A and 2B, showing lysis by CTL 81/12 (figure 2A) and CTL 82/35 (figure 2B) . Arrows indicate the level of lysiε of MZ2-MEL 43(B + ) and MZ2 lymphoblaεtoid cellε (B " ) , incubated without peptides. The experiments set forth supra εuggeεt that a peptide with a particular binding motif iε required for binding to HLA-Cw * 1601. Peptideε of thiε formula, i.e.: Xaa Ala (Xaa) 6 Leu (SEQ ID NO: 10), are one feature of the invention. In SEQ ID NO: 10, Xaa refers to any amino acid, with the following preferences: Ala or Ser at position 1 Tyr or Arg at position 3 Gly or Ala at position 4 Glu or Val at position 5 Pro or Phe at position 6 Arg or Leu at position 7 Lyε or Ala at poεition 8 Isolated peptideε of thiε formula are uεeful, e.g., in diagnoεing cancer, aε will be explained. It is known, as per the referenceε cited herein, that patients do develop cytolytic T cells against their own tumors. For HLA-Cw * 1601 positive patients, these cytolytic T cellε recognize and react with any cell which presents complexes of HLA-Cw * 1601 and a peptide of the formula in SEQ ID NO: 10, moεt preferably SEQ ID NO: 4 or SEQ ID NO: 5. The recognition may be monitored via TNF releaεe by the CTLε, proliferation of the CTLε, and/or releaεe of some agent contained by the target cells, e.g., radioactive chromium ( 51 Cr). Thus, in one aspect of the invention, a sample of a subject's blood, containing PBLS, is contacted to HLA-Cw * 1601 presenting cells. These cellε are contacted, such as by pulsing, with a peptide in accordance with SEQ ID NO: 10. These peptides complex with the HLA- Cw * 1601 molecules, and any CTLs in the PBL containing sample react therewith. Thuε, one aspect of the invention is a diagnostic assay for the determination of tumor specific CTLs, it having been established that only tumor cellε preεent MAGE derived TRAε. The one exception to thiε appearε to be teεticular cellε, but it iε a εimple matter to εimply exclude the poεεibility that CTLε in the εubject's blood are reacting with testes cells. One may also transfect an HLA-Cw * l601 positive cell with a MAGE gene, e.g., MAGE-1, to produce the deεired complexeε. In another aspect of the invention, the peptides disclosed herein may be used alone or complexed to carrier proteins, and then be used aε i munogenε. Such immunogenε can be uεed alone, or preferably with a pharmaceutically acceptable adjuvant. The antibodieε are useful, also in diagnostic assays, to determine if and when the particular peptideε are preεented on cellε. Again, εuch presentation is indicative of cancer. The isolated nucleic acid molecules of the invention are also useful, aε indicated, aε probeε for the determination of expreεsion of HLA-Cw * 1601. It hardly needs to be said that HLA typing is important in, e.g., tissue typing for transplantation, and other areas. Thus, it iε useful to have available materials which can be used in this context. The primers used in the PCR work can be used, alone or in combination, in amplification asεayε such as polymerase chain reaction. They can also be uεed, when labelled, e.g., radioactively or non-radioactively, aε probeε for determining whether or not HLA-Cw * 1601 iε expressed, in other diagnostic assays. Thus, combinations of two or more of SEQ ID NOS: 6, 7, 8 and 9 may be used, in "one-pot" or kit forms, aε diagnoεtic reagents. A kit form is expressly preferred, where separate portions of SEQ ID NOS: 6 and 7 and SEQ ID NOS: 8 and 9 are provided, in a packaging means, for use in an amplification or other formats. The kits may also include polymeraseε, such as Taq polymerase, in specific embodiments. The foregoing experimentε demonstrate that HLA-Cw * 1601 presents a MAGE-1 derived peptide as a tumor rejection antigen, leading to lyεiε of the preεenting cells. There are ramifications of thiε finding, diεcussed infra. For example, CTL clone 81/12 iε repreεentative of CTLε εpecific for the complex in question. Administration of such CTLε to a εubject iε expected to be therapeutically uεeful when the patient preεentε HLA-Cw*1601 phenotype on abnormal cells. It iε within the skill of the artisan to develop the necesεary CTLε in vitro. Specifically, a εample of cellε, εuch aε blood cells, are contacted to a cell presenting the complex and capable of provoking a specific CTL to proliferate. The target cell can be a transfectant, such as a COS cell of the type described supra. These transfectantε preεent the desired complex on their surface and, when combined with a CTL of interest, stimulate its proliferation. It haε been pointed out that the sequence for HLA-Cw * 1601 is known to the art through GENBANK and EMBL, and the sequence for MAGE-1 , together with a detailed protocol for its isolation, is provided by the PCT application and Van den Bruggen et al., both of which are incorporated by reference in their entirety, supra. COS cells, such as those uεed herein are widely available, as are other suitable host cells. To detail the therapeutic methodology, referred to as adoptive transfer (Greenberg, J. Immunol. 136(5): 1917 (1986); Riddel et al. , Science 257: 238 (7-10-92); Lynch et al., Eur. J. Immunol. 21: 1403-1410 (1991); Kast et al., Cell 59: 603- 614 (11-17-89)), cells presenting the desired complex are combined with CTLs leading to proliferation of the CTLε specific thereto. The proliferated CTLs are then administered to a subject with a cellular abnormality which is characterized by abnormal cells preεenting the particular complex. The CTLs then lyse the abnormal cells, thereby achieving the desired therapeutic goal. The foregoing therapy assumes that the subject's abnormal cellε preεent the HLA-Cw * 1601/MAGE-1 derived peptide complex. This can be determined very easily. For example CTLs are identified using the transfectantε discussed supra , and once isolated, can be used with a sample of a subject's abnormal cells to determine lysis n vitro. If lyεiε iε observed, then the use of specific CTLs in such a therapy may alleviate the condition asεociated with the abnormal cellε. A leεε involved methodology examineε the abnormal cellε for HLA phenotyping, using standard asεayε, and determines expresεion of MAGE-1 via amplification using, e.g., PCR. Adoptive transfer iε not the only form of therapy that iε available in accordance with the invention. CTLs can also be provoked in vivo, using a number of approaches. One approach, i.e., the use of non-proliferative cells expreεεing the complex, haε been elaborated upon supra. The cells used in this approach may be those that normally expresε the complex, such as irradiated melanoma cells or cellε transfected with one or both of the genes necesεary for preεentation of the complex. Chen et al., Proc. Natl. Acad. Sci. USA 88: 110-114 (January, 1991) exemplify thiε approach, showing the use of transfected cells expreεεing HPVE7 peptideε in a therapeutic regime. Various cell types may be used. Similarly, vectors carrying one or both of the genes of interest may be used. Viral or bacterial vectors are especially preferred. In these systems, the gene of interest iε carried by, e.g., a Vaccinia viruε or the bacteria BCG, and the materials de facto "infect" host cells. The cells which result present the complex of interest, and are recognized by autologous CTLε, which then proliferate. A similar effect can be achieved by combining MAGE-1 itself with an adjuvant to facilitate incorporation into HLA-Cw * 1601 presenting cells. The enzyme is then processed to yield the peptide partner of the HLA molecule. The foregoing discussion refers to "abnormal cells" and "cellular abnormalities". These terms are employed in their broadeεt interpretation, and refer to any εituation where the cellε in question exhibit at least one property which indicateε that they differ from normal cellε of their specific type. Examples of abnormal properties include morphological and biochemical changes, e.g. Cellular abnormalities include tumors, such as melanoma, autoimmune disorders, and so forth. Other aspects of the invention will be clear to the skilled artisan and need not be repeated here. The terms and expressions which have been employed are used aε termε of deεcription and not of limitation, and there iε no intention in the uεe of εuch termε and expreεεionε of excluding any equivalentε of the featureε εhown and deεcribed or portionε thereof, it being recognized that variouε modificationε are possible within the scope of the invention. SEQUENCE LISTING (1) GENERAL INFORMATION: (i) APPLICANTS: van der Bruggen, Pierre Szikora, Jean-Pierre Coulie, Pierre Wildman, Claude Boel, Pascale Boon-Falleur, Thierry (ii) TITLE OF INVENTION: METHOD FOR IDENTIFYING INDIVIDUALS SUFFERING FROM A CELLULAR ABNORMALITY SOME OF WHOSE ABNORMAL CELLS PRESENT COMPLEXES OF HLA-Cw * 1601/MAGE-1 DERIVED PEPTIDES, AND METHODS FOR TREATING SAID INDIVIDUALS (iii) NUMBER OF SEQUENCES: 10 (iv) CORRESPONDENCE ADDRESS: (A) ADDRESSEE: Felfe & Lynch (B) STREET: 805 Third Avenue (C) CITY: New York City (D) STATE: New York (E) COUNTRY: USA (F) ZIP: 10022 (V) COMPUTER READABLE FORM: (A) MEDIUM TYPE: Diskette, 5.25 inch, 360 kb storage (B) COMPUTER: IBM PS/2 (C) OPERATING SYSTEM: PC-DOS (D) SOFTWARE: Wordperfect (vi) CURRENT APPLICATION DATA: (A) APPLICATION NUMBER: 08/292,492 (B) FILING DATE: 18-AUG-1994 (C) CLASSIFICATION: 435 (vii) PRIOR APPLICATION DATA: (A) APPLICATION NUMBER: 08/195,186 (B) FILING DATE: 14-FEB-1994 (vii) PRIOR APPLICATION DATA: (A) APPLICATION NUMBER: 08/008,446 (B) FILING DATE: 22-JANUARY-1993 (viii) ATTORNEY/AGENT INFORMATION: (A) NAME: Hanson, Norman D. (B) REGISTRATION NUMBER: 30,946 (C) REFERENCE/DOCKET NUMBER: LUD 5361.1 (ix) TELECOMMUNICATION INFORMATION: (A) TELEPHONE: (212) 688-9200 (B) TELEFAX: (212) 838-3884 (2) INFORMATION FOR SEQ ID NO: 1: (i) SEQUENCE CHARACTERISTICS: (A) LENGTH: 17 base pairs (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 1: ACTCCATGAG GTATTTC 17 (2) INFORMATION FOR SEQ ID NO: 2: (i) SEQUENCE CHARACTERISTICS: (A) LENGTH: 16 amino acid residueε (B) TYPE: amino acid (D) TOPOLOGY: single (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 2: Glu His Ser Ala Tyr Gly Glu Pro Arg Lys Leu Leu Thr Gin Asp Leu 5 10 15 (2) INFORMATION FOR SEQ ID NO: 3: (i) SEQUENCE CHARACTERISTICS: (A) LENGTH: 12 amino acid residues (B) TYPE: amino acid (D) TOPOLOGY: single (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 3: Glu His Ser Ala Tyr Gly Glu Pro Arg Lys Leu Leu 5 10 (2) INFORMATION FOR SEQ ID NO: 4: (i) SEQUENCE CHARACTERISTICS: (A) LENGTH: 9 amino acid residueε (B) TYPE: amino acid (D) TOPOLOGY: single (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 4: Ser Ala Tyr Gly Glu Pro Arg Lys Leu 5 (2) INFORMATION FOR SEQ ID NO: 5: (i) SEQUENCE CHARACTERISTICS: (A) LENGTH: 9 amino acid residueε (B) TYPE: amino acid (D) TOPOLOGY: single (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 5; Ala Ala Arg Ala Val Phe Leu Ala Leu 5 (2) INFORMATION FOR SEQ ID NO: 6: (i) SEQUENCE CHARACTERISTICS: (A) LENGTH: 17 base pairs (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 6: CAAGCGCCAG GCACAGA 17 (2) INFORMATION FOR SEQ ID NO: 7: (i) SEQUENCE CHARACTERISTICS: (A) LENGTH: 19 base pairε (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear ( i) SEQUENCE DESCRIPTION: SEQ ID NO: 7: GCCTCATGGT CAGAGACGA 19 (2) INFORMATION FOR SEQ ID NO: 8: (i) SEQUENCE CHARACTERISTICS: (A) LENGTH: 17 baεe pairs (B) TYPE: nucleic acid (C) STRANDEDNESS: single (D) TOPOLOGY: linear (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 8: GAGTGAGCCT GCGGAAC 17 (2) INFORMATION FOR SEQ ID NO: 9: (i) SEQUENCE CHARACTERISTICS: (A) LENGTH: 18 baεe pairε (B) TYPE: nucleic acid (C) STRANDEDNESS: εingle (D) TOPOLOGY: linear (xi) SEQUENCE DESCRIPTION: SEQ ID NO: CCTCCAGGTA GGCTCTCT 18 (2) INFORMATION FOR SEQ ID NO: 10: (i) SEQUENCE CHARACTERISTICS: (A) LENGTH: 9 amino acid reεidueε (B) TYPE: amino acid (D) TOPOLOGY: single (xi) SEQUENCE DESCRIPTION: SEQ ID NO: 10: Xaa Ala (Xaa) 6 Leu

Claims: We claim : 1. Method for identifying a candidate for treatment with a therapeutic agent specific for complexes of HLA-C-clone 10 and the peptide of SEQ ID NO: 4, comprising: (i) contacting an abnormal cell sample from a subject with a cytolytic T cell specific for said complexes, and (ii) determining lysis of at least part of said abnormal cell sample as an indication of a candidate for said treatment. 2. Method for treating a subject with a cellular abnormality, comprising administering to said subject an amount of an agent which provokes a cytolytic T cell responεe to cellε preεenting complexeε of HLA-C-clone 10 and the peptide of SEQ ID NO: 4 on their surfaces sufficient to provoke a response to abnormal cells presenting said complexes on their surfaces. 3. The method of claim 2, wherein said cellular abnormality is cancer. 4. The method of claim 3, wherein said cancer iε melanoma. 5. The method of claim 2, wherein said agent compriεeε a vector which codeε for the peptide of SEQ ID NO: 4. 6. The method of claim 5, wherein said agent further comprises a vector which codes for HLA-C-clone 10. 7. The method of claim 5, wherein said vector also codes for HLA-C-clone 10. 8. The method of claim 2, wherein said agent is a εample of non-proliferative cellε which preεent said complexes on their surfaceε. 9. Method for treating a cellular abnormality co priεing adminiεtering to a subject with a cellular abnormality characterized by presentation of complexes of HLA-C-clone 10 and the peptide of SEQ ID NO: 4 on surfaces of abnormal cells an amount of cytolytic T cellε εpecific for εaid complexeε εufficient to lyεe said abnormal cells. 10. The method of claim 9, wherein said cellular abnormality iε cancer. 11. The method of claim 10, wherein said cancer iε melanoma. 12. The method of claim 9, wherein εaid cytolytic T cellε are autologouε. 13. Isolated cytolytic T cell which is specific for a complex of HLA-C-clone 10 and the peptide of SEQ ID NO: 4. 14. Method for identifying an abnormal cell which presents a complex of HLA-C-clone 10 and the peptide of SEQ ID NO: 4 on its surface comprising contacting a sample of abnormal cellε with a cytolytic T cell specific for said complex and determining lysis of said abnormal cells aε a determination of cells which present said complex. 15. Isolated peptide selected from the group conεiεting of: SEQ ID NO: 2 SEQ ID NO: 3, and SEQ ID NO: 4. 16. Isolated complex of HLA-C-clone 10 and the isolated peptide of SEQ ID NO: 4. 17. Isolated nonapeptide of formula: Xaa Ala (Xaa) 6 Leu (SEQ ID NO: 10) where Xaa is any amino acid. 18. Immunogenic composition comprising the isolated nonapeptide of claim 17 and a pharmaceutically acceptable adjuvant. 19. The immunogenic composition of claim 18, wherein said isolated nonapeptide is complexed to a carrier protein. 20. Isolated nucleic acid molecule useful in determining expresεion of HLA-Cw * 1601, selected from the group consisting of: SEQ ID NO: 6, SEQ ID NO: 7, SEQ ID NO: 8 and SEQ ID NO: 9. 21. Kit useful in determining expression of HLA-Cw * 1601, comprising: (a) a first reagent containing SEQ ID NO: 6 and SEQ ID NO: 7; (b) a second reagent containing SEQ ID NO: 8 and SEQ ID NO : 9 ; and (c) a packaging meanε for holding εaid firεt and εecond reagentε. 22. The kit of claim 21, further co priεing a εeparate portion of a polymeraεe. 23. Compoεition of matter useful in determining expression of HLA-Cw * 1601 in a sample, comprising: (a) a mixture of SEQ ID NO: 6 and SEQ ID NO: 7 or (b) a mixture of SEQ ID NO: 8 and SEQ ID NO: 9.

Inventors: BOEL PASCALE, BOON-FALLEUR THIERRY, BRUGGEN PIERRE VAN DER, COULIE PIERRE, SZIKORA JEAN-PIERRE, WILDMANN CLAUDE, BOEL, PASCALE, BOON-FALLEUR, THIERRY, COULIE, PIERRE, SZIKORA, JEAN-PIERRE, VAN DER BRUGGEN, PIERRE, WILDMANN, CLAUDE
Applicants: LUDWIG INST CANCER RES, LUDWIG INSTITUTE FOR CANCER RESEARCH
Application year: 1995
Main classification: A61K48
IPC codes: A61K38, A61K39, A61P35, C07K7, C07K14, C12N5, C12N15, C12Q1, G01N33