WO2021148581A1 - Novel dbait molecule and its use - Google Patents
Novel dbait molecule and its use Download PDFInfo
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- WO2021148581A1 WO2021148581A1 PCT/EP2021/051409 EP2021051409W WO2021148581A1 WO 2021148581 A1 WO2021148581 A1 WO 2021148581A1 EP 2021051409 W EP2021051409 W EP 2021051409W WO 2021148581 A1 WO2021148581 A1 WO 2021148581A1
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- nucleic acid
- dbait
- acid molecule
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- inhibitor
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- C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
- C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
- C12N15/09—Recombinant DNA-technology
- C12N15/11—DNA or RNA fragments; Modified forms thereof; Non-coding nucleic acids having a biological activity
- C12N15/113—Non-coding nucleic acids modulating the expression of genes, e.g. antisense oligonucleotides; Antisense DNA or RNA; Triplex- forming oligonucleotides; Catalytic nucleic acids, e.g. ribozymes; Nucleic acids used in co-suppression or gene silencing
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- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
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- C12N2310/00—Structure or type of the nucleic acid
- C12N2310/10—Type of nucleic acid
- C12N2310/13—Decoys
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- C—CHEMISTRY; METALLURGY
- C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
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- C12N2310/00—Structure or type of the nucleic acid
- C12N2310/50—Physical structure
- C12N2310/53—Physical structure partially self-complementary or closed
- C12N2310/531—Stem-loop; Hairpin
Definitions
- the present invention relates to the field of medicine, in particular oncology. Specifically, the present invention relates to a DBait molecule. BACKGROUND OF THE INVENTION
- DDR tumor DNA Damage Response
- Dbait molecules conjugated (co-Dbait) or not, are small synthetic hairpin nucleic acid molecules that mimic DNA double-strand breaks and therefore interfere, disorganize and/or block damage signaling and DNA repair.
- Dbait and CoDbait molecules are disclosed in patent applications WO2005/040378, WO2008/034866, WO2008/084087, WO2011/161075, WO2017/013237, WO2017/148976, WO2019/175132 and WO2020/188015.
- AsiDNATM is a synthetic cholesterol-conjugate 32-base pair double helix DNA currently in clinical trial. This first-in-class signal-interfering repair technology successfully achieved phase 1 trials in patients with advanced solid tumors, showing favorable safety profile with maximum tolerated dose not reached. AsiDNATM induced the intratumoral activation of its DNA-PK target, confirming its mechanism of action. AsiDNATM is currently under clinical trials for systemic (IV) administration in solid tumors, in combination with anti-cancer treatments.
- IV systemic
- the present invention provides new DBait nucleic acid molecules for treating cancer, which target DNA repair pathways. More specifically, the new DBait nucleic acid molecules are able to recruit and activate both DNA-PK and PARP proteins. More specifically, the present invention relates to a DBait nucleic acid molecule comprising a double-stranded nucleic acid moiety, the 5'end of the first strand and the 3'end of the complementary strand being linked together by a loop; the double-stranded nucleic acid moiety having the following sequence the loop being
- the double-stranded nucleic acid moiety has the following sequence wherein internucleotide linkages "s" refer to phosphorothioate internucleotide linkages.
- s refer to phosphorothioate internucleotide linkages.
- r is 1, s is 0 and g is an integer from 5 to 7, preferably 6.
- i and j are 1 and k and I are both 1 or 2.
- m is an integer between 4 and 6, preferably 5.
- the DBait nucleic acid molecule is OX409 as detailed above.
- the present invention further relates to a pharmaceutical or veterinary composition
- a pharmaceutical or veterinary composition comprising a Dbait nucleic acid molecule according to the present invention.
- the pharmaceutical or veterinary composition may further comprise a therapeutic agent, in particular selected from a chemotherapeutic agent such as a DNA damaging antitumoral agent, a PARP inhibitor, a kinase inhibitor, a HDAC inhibitor, a KRAS inhibitor, an immunotherapeutic agent, a hormonal therapeutic agent or any combination thereof.
- a chemotherapeutic agent such as a DNA damaging antitumoral agent, a PARP inhibitor, a kinase inhibitor, a HDAC inhibitor, a KRAS inhibitor, an immunotherapeutic agent, a hormonal therapeutic agent or any combination thereof.
- the present invention also relates to a Dbait nucleic acid molecule or a pharmaceutical composition according to the present invention for use as a drug, more specifically for use for treating a cancer.
- the Dbait nucleic acid molecule or a pharmaceutical composition can be used in combination with radiotherapy, a chemotherapeutic agent such as a DNA damaging antitumoral agent, a PARP inhibitor, a kinase inhibitor, a HDAC inhibitor, a KRAS inhibitor, an immunotherapeutic agent, a hormonal therapeutic agent or any combination thereof.
- the cancer is selected from leukemia, lymphoma, sarcoma, melanoma, and cancers of the head and neck, kidney, ovary, pancreas, prostate, thyroid, lung, esophagus, breast, bladder, brain, colorectum, liver, and cervix.
- the chemotherapeutic agent is selected from the group consisting of a platinum agent such as cisplatin, oxaliplatin and carboplatin, an alkylating agent, a camptothecin, a nitrogen mustard, an antibiotic, an antimetabolite, and a vinca alkaloid.
- a platinum agent such as cisplatin, oxaliplatin and carboplatin
- an alkylating agent such as a camptothecin
- a nitrogen mustard such as an antibiotic, an antimetabolite, and a vinca alkaloid.
- the PARP inhibitor is selected from the group consisting of rucaparib (AG014699, PF- 01367338), olaparib (AZD2281), veliparib (ABT888), iniparib (BSI 201), niraparib (MK 4827), talazoparib (BMN673), AZD 2461, CEP 9722, E7016, INO-1001, LT-673, MP-124, NMS-P118, XAV939, analogs, derivatives or a mixture thereof.
- the kinase inhibitor is selected from the group consisting of an inhibitor targeting one or several targets selected in the list consisting of EGFR family, ALK, B-Raf, MEK, FGFR1, FGFR2, FGFR3, FGFR4, FLT3, IGF1R, c-Met, JAK family, PDGFR ⁇ and ⁇ , RET, AXL, c-KIT, TrkA, TrkB, TrkC, ROS1, BTK and Syk, more preferably selected from the group consisting of gefitinib, erlotinib, lapatinib, vandetanib, afatinib, osimertinib, neratinib, dacomitinib, brigatinib, canertinib, naquotinib, toartinib, pelitinib, rociletinib, icotinib, AZD3759, AZ5104 (CAS N°
- the KRAS inhibitor is selected from the group consisting of AMG 510 (Amgen/Carmot Therapeutics), MRTX-849 (Mirati Therapeutics), ARS-3248 / JNJ-74699157 (Johnson & Johnson/ Wellspring Biosciences), Compound B (Sanofi/X-Chem Pharmaceuticals), LY3499446 (Eli Lilly), ARS-853, ARS-1620, BI-2852, BI-1701963 (Boehringer Ingelheim), mRNA-5671 (Moderna Therapeutics), G12D inhibitor (Mirati), RAS(On)inhibitors (Revolution medicines) and BBP-454 (BridgeBio Pharma).
- AMG 510 Amgen/Carmot Therapeutics
- MRTX-849 Morati Therapeutics
- ARS-3248 / JNJ-74699157 Johnson & Johnson/ Wellspring Biosciences
- Compound B Sanofi/X-Chem Pharmaceuticals
- LY3499446 Eli Lilly
- OX409 is recognized by DNA-PK enzyme as a DSB. OX409 or Dbait32Hc-induced DNA- PK ATPase activity was monitored using the DNA-PK activity assay, with increasing doses of OX409 or of Dbait32Hc. Rates of ATP hydrolysis (Vmax) and Michaelis constant (Km) were calculated using GraphPadprism software.
- OX409 induces PARP hyperactivation in tumor cells.
- Cells were treated for 24 hours with OX409 (50nM) or Dbait32Hc (50nM).
- DNA-PK activation was monitored by analysis of ⁇ H2AX, and PARP activation was analyzed by quantification of proteins PARylation by western blot assay.
- the present invention provides a novel DBait molecule being optimized for the synthesis. Accordingly, the present invention relates to: - a DBait nucleic acid molecule as described below; - a pharmaceutical composition comprising a DBait nucleic acid molecule as described below and a pharmaceutically acceptable carrier, in particular for use in the treatment of cancer; - a DBait nucleic acid molecule as described below for use as a drug, in particular for use in the treatment of cancer; - the use of a DBait nucleic acid molecule as described below for the manufacture of a drug, in particular for use in the treatment of cancer; - a method for treating a cancer in a patient in need thereof, comprising administering an effective amount of a DBait nucleic acid molecule as disclosed herein; - a pharmaceutical composition comprising a DBait nucleic acid molecule as described below, an additional therapeutic agent and a pharmaceutically acceptable carrier, in particular for use in the treatment of cancer; - a
- treatment of a cancer or the like is mentioned with reference to the pharmaceutical composition, kit, product, combined preparation and combinations of the invention, there is meant: a) a method for treating a cancer, said method comprising administering a pharmaceutical composition, kit, product, combined preparation and combinations of the invention to a patient in need of such treatment; b) a pharmaceutical composition, kit, product, combined preparation, and combinations of the invention for use in the treatment of a cancer; c) the use of a pharmaceutical composition, kit, product, combined preparation and combinations of the invention for the manufacture of a medicament for the treatment of a cancer; and/or d) a pharmaceutical composition, kit, product, combined preparation and combinations of the invention for use for the treatment of cancer, and optionally for increasing the efficiency of a treatment of a cancer with a therapeutic antitumor agent, or for enhancing tumor sensitivity to treatment with a therapeutic antitumor.
- treatment denotes curative, symptomatic, and preventive treatment.
- Pharmaceutical compositions, kits, products, combined preparations and combinations of the invention can be used in humans with existing cancer or tumor, including at early or late stages of progression of the cancer.
- the pharmaceutical compositions, kits, products, combined preparations, and combinations of the invention will not necessarily cure the patient who has the cancer but will delay, slow, or stabilise the progression or prevent further progression of the disease, improving thereby the patients' condition.
- the pharmaceutical compositions, kits, products, combined preparations and combinations of the invention reduce the development of tumors, reduce tumor burden, produce tumor regression in a mammalian host and/or prevent metastasis occurrence and cancer relapse.
- the pharmaceutical composition, kit, product, combined preparation and combinations of the invention is administered in a therapeutically effective amount.
- kit means especially a “kit-of-parts” in the sense that the combination partners (a) and (b), as defined above can be dosed independently or by use of different fixed combinations with distinct amounts of the combination partners (a) and (b), i.e. simultaneously or sequentially at different time points.
- the components of the kit-of-parts can then, e.g., be administered simultaneously or chronologically staggered, that is at different time points and with equal or different time intervals for any part of the kit-of-parts.
- the ratio of the total amounts of the combination partner (a) to the combination partner (b), to be administered can be varied.
- the combination partners (a) and (b) can be administered by the same route or by different routes.
- “combination therapy” is intended to embrace administration of therapeutic agents in a sequential manner, wherein each therapeutic agent is administered at a different time, as well as administration of all these therapeutic agents, or at least two of the therapeutic agents concurrently, or in a substantially simultaneous manner.
- concurrent administration includes a dosing regimen when the administration of one or more agent(s) continues after discontinuing the administration of one or more other agent(s).
- an effective amount it is meant the quantity of the Dbait in a pharmaceutical composition, kit, product, combined preparation and combination of the invention which prevents, removes or reduces the deleterious effects of cancer in mammals, including humans, alone or in combination with the other active ingredients in the pharmaceutical composition, kit, product, combined preparation and combination. It is understood that the administered dose may be adapted by those skilled in the art according to the patient, the pathology, the stage of the disease, the mode of administration, etc.
- the DBait nucleic acid molecule comprises a double-stranded nucleic acid moiety, the 5'end of the first strand and the B'end of the complementary strand being linked together by a loop; the double-stranded nucleic acid moiety having the following sequence the loop being
- the double-stranded nucleic acid moiety may comprise nucleotide(s) with a modified phosphodiester backbone, in particular in order to protect them from degradation.
- the nucleotide(s) having a modified phosphodiester backbone are located at the free end of the double-stranded moiety of the nucleic acid molecule.
- 1, 2 or 3 internucleotidic linkages of the nucleotides located at the free end of the double-stranded moiety of the nucleic acid molecule have a modified phosphodiester backbone, optionally on one or the other strand, preferably on both strands.
- the DBait nucleic acid molecules may have a 3'-3' nucleotide linkage ora 3'-5' nucleotide linkage at the end of a strand.
- the modified phosphodiester backbone can be a phosphorothioate.
- the DBait nucleic acid molecule has the following sequence wherein internucleotide linkages "s" refer to phosphorothioate internucleotide linkages.
- r is 1, s is 0 and g is an integer from 5 to 7, preferably 6. In another aspect, s is 1, r is 0 and h is an integer from 5 to 7, preferably 6.
- i and j are 1 and k and I are both 1 or 2.
- m is an integer between 4 and 6, preferably 5.
- r is 1, s is 0 and g is an integer from 5 to 7, preferably 6; i and j are 1 and k and I are both 1 or 2; and m is an integer between 4 and 6, preferably 5.
- r, i and j is 1, s is 0, g is 6, k and I is 2, and m is 5.
- the DBait nucleic acid molecule is OX409 molecule Combination with other therapeutic agents
- the DBait nucleic acid molecule can be used in combination with at least one additional active ingredient formulated in separate pharmaceutical composition(s) or the pharmaceutical composition comprising the DBait nucleic acid molecule may further comprise at least one additional active ingredient.
- the additional active ingredient is a drug used for treating cancer.
- the DBait nucleic acid molecule can be used in combination with a radiotherapy, a radioisotope therapy, a chemotherapeutic agent such as a DNA damaging antitumoral agent, a PARP inhibitor, a kinase inhibitor, a HDAC inhibitor, a KRAS inhibitor, an immunotherapeutic agent, a hormonal therapeutic agent or any combination thereof or any anti-cancer drug.
- the term "antitumor chemotherapy” or “chemotherapy” refers to a cancer therapeutic treatment using chemical or biochemical substances, in particular using one or several antineoplastic agents.
- hormone therapy refers to a cancer treatment having for purpose to block, add or remove hormones. For instance, in breast cancer, the female hormones estrogen and progesterone can promote the growth of some breast cancer cells. So in these patients, hormonal therapy is given to block estrogen and a non-exhaustive list commonly used drugs includes: Tamoxifen, Fareston, Arimidex, Aromasin, Femara, Zoladex/Lupron, Megace, and Halotestin.
- immunotherapy refers to a cancer therapeutic treatment using the immune system to reject cancer. The therapeutic treatment stimulates the patient's immune system to attack the malignant tumor cells.
- Radiotherapy includes, but is not limited to, ⁇ -rays, X-rays, and/or the directed delivery of radioisotopes to tumor cells.
- Other radiotherapies include microwaves and UV-irradiation.
- Other approaches to radiation therapy are also contemplated in the present invention.
- the additional active ingredient can be more specifically selected from a chemotherapy, a PARP inhibitor, a kinase inhibitor, a HDAC inhibitor and a KRAS inhibitor.
- the chemotherapy is preferably a DNA-damaging anti-tumoral agent.
- the DNA-damaging antitumor agent is preferably selected from the group consisting of an inhibitor of topoisomerases I or II, a DNA crosslinker, a DNA alkylating agent, an anti-metabolic agent and inhibitors of the mitotic spindles. More specifically, the DNA-damaging anti-tumor agent can be selected from the group consisting of a platinum agent, an alkylating agent, a camptothecin, a nitrogen mustard, an antibiotic, an antimetabolite, and a vinca alkaloid.
- Inhibitors of topoisomerases I and/or II include, but are not limited to, etoposide, topotecan, camptothecin, irinotecan, amsacrine, intoplicine, anthracyclines such as doxorubicine, epirubicine, daunorubicine, idanrubicine and mitoxantrone.
- Inhibitors of Topoisomerase I and II include, but are not limited to, intoplicine.
- DNA crosslinkers include, but are not limited to, a platinum agent selected from the group consisting of cisplatin, carboplatin and oxaliplatin.
- Anti-metabolic agents block the enzymes responsible for nucleic acid synthesis or become incorporated into DNA, which produces an incorrect genetic code and leads to apoptosis.
- Non- exhaustive examples thereof include, without limitation, folic acid antagonists, pyrimidine analogs, purine analogs and adenosine deaminase inhibitors, and more particularly Methotrexate, Floxuridine, Cytarabine, 6-Mercaptopurine, 6- Thioguanine, Fludarabine phosphate, Pentostatin, 5-fluorouracil, gemcitabine and capecitabine.
- the DNA-damaging anti-tumoral agent can be alkylating agents including, without limitation, nitrogen mustards, ethylenimine derivatives, alkyl sulfonates, nitrosoureas, metal salts and triazenes.
- Non-exhaustive examples thereof include Uracil mustard, Chlormethine, Cyclophosphamide (CYTOXAN(R)), Ifosfamide, Melphalan, Chlorambucil, Pipobroman, Triethylenemelamine, Triethylenethiophosphoramine, Busulfan, Carmustine, Lomustine, Fotemustine, cisplatin, carboplatin, oxaliplatin, thiotepa, Streptozocin, dacarbazine, and Temozolomide.
- Inhibitors of the mitotic spindles include, but are not limited to, paclitaxel, docetaxel, vinorelbine, larotaxel (also called XRP9881; Sanofi-Aventis; RPR 109881A (Bristol-Meyer-Squibb)), XRP6258 (Sanofi-Aventis), BMS-184476 (Bristol-Meyer-Squibb), BMS-188797 (Bristol-Meyer-Squibb), BMS-275183 (Bristol-Meyer-Squibb), ortataxel (also called IDN 5109, BAY 59-8862 or SB-T- 101131 ; Bristol-Meyer-Squibb), RPR 116258 (Bristol-Meyer-Squibb), NBT-287 (TAPESTRY), PG- paclitaxel (also called CT-2103, PPX, paclitaxel poliglumex, paclitaxel poly
- the DNA-damaging antitumor agent is a platinum agent such as cisplatin, oxaliplatin and carboplatin.
- the DNA-damaging antitumor agent can be paclitaxel.
- PARP inhibitors useful in the methods described herein.
- PARP is meant Poly (ADP-ribose) polymerase.
- PARP catalyzes the conversion of b-nicotinamide adenine dinucleotide (NAD+) into nicotinamide and poly-ADP-ribose (PAR).
- PARP is a key molecule in the repair of DNA single-strand breaks (SSBs).
- PARP inhibitor refers to any compound which has the ability to decrease the activity of a poly (ADP-ribose) polymerase (PARP).
- PARP inhibition relies mainly on two different mechanisms: (i) catalytic inhibition that acts mainly by inhibiting PARP enzyme activity and (ii) bound inhibition that traps PARP enzyme and prevents its release from the damage site. Bound inhibitors are more toxic to cells than catalytic inhibitors.
- PARP inhibitors according to the invention are preferably catalytic and/or bound inhibitors. Many PARP inhibitors are known and, thus, can be synthesized by known methods from starting materials that are known, may be available commercially, or may be prepared by methods described in the literature.
- Suitable PARP inhibitors include, but are not limited to, olaparib (AZD-2281, 4-[(3-[(4-cyclopropylcarbonyl)piperazin-4-yl]carbonyl)-4- fluorophenyl]methyl(2H)-phthalazin-l-one), veliparib (ABT-888, CAS 912444-00-9, 2-((fi)-2- methylpyrrolidin-2-yl)-IW-benzimidazole-4-carboxamide), CEP-8983 (ll-methoxy-4, 5,6,7- tetrahydro-IH-cyclopenta[a]pyrrolo[3,4-c]carbazole-l,3(2H)-dione) or a prodrug thereof (e.g.
- the PARP inhibitor is selected from the group consisting of rucaparib (AG014699, PF-01367338), olaparib (AZD2281), veliparib (ABT888), iniparib (BSI 201), niraparib (MK 4827), talazoparib (BMN673), AZD 2461, CEP 9722, E7016, INO-1001, LT-673, MP-124, NMS- P118 and XAV939.
- HDAC histone deacetylase
- histone deacetylase inhibitor refers to a compound natural or synthetic that inhibits histone deacetylase activity.
- HDACi histone deacetylase inhibitor
- a “classical HDACi” refers thus to a compound natural or not which has the capability to inhibit the histone deacetylase activity independently of the class of HDACs. Therefore a classical HDACi is a non selective HDACi. By “non selective” it is meant that said compound inhibits the activity of classical HDACs (i.e. class I, II and IV) with a similar efficiency independently of the class of HDAC. Examples of classical HDACi include, but are not limited to, Belinostat (PDX-101), Vorinostat (SAHA) and Panobinostat (LBH-589).
- a “selective class I HDACi” is selective for class I HDACs (i.e.
- HDAC 1-3 and 8) as compared with class II HDACs (i.e. HDAC4-7, 9 and 10).
- selective it is meant that selective class I HDACi inhibits class I HDACs at least 5-fold, preferably 10-fold, more preferably 25-fold, still preferably 100-fold higher than class II HDACs.
- Selectivity of HDACi for class I or class II HDACs may be determined according to previously described method (Kahn et al. 2008).
- Examples of selective class I HDACi include, but are not limited to, valproic acid (VPA), Romidepsin (FK-228) and Entinostat (MS-275).
- a “selective class II HDACi” is selective for class II HDACs (i.e. HDAC4-7, 9 and 10) as compared with class I HDACs (i.e. HDAC 1-3 and 8).
- selective it is meant that selective class II HDACi inhibits class II HDACs at least 5-fold, preferably 10-fold, more preferably 25-fold, still preferably 100-fold higher than class I HDACs.
- selective class II HDACi include, but are not limited to, tubacin and MC-1568 (aryloxopropenyl)pyrrolyl hydroxamate).
- HDAC inhibition relies mainly on a mechanism based on the inhibition of the HDAC enzymatic activity which can be determined by a variety of methods well known by the skilled person. Usually, these methods comprise assessing the lysine deacetylase activity of HDAC enzymes using colorimetric HDAC assays. Commercial kits for such techniques are available (see for example, Histone Deacetylase (HDAC) Activity Assay Kit (Fluorometric) purchased from Abeam or Sigma- Aldrich). These methods are ideal for the determination of IC50 values of known or suspected HDAC inhibitors.
- HDAC Histone Deacetylase
- HDAC inhibitors are known and, thus, can be synthesized by known methods from starting materials that are known, may be available commercially, or may be prepared by methods used to prepare corresponding compounds in the literature.
- HDAC inhibitors are hydroxamic acid inhibitors which are disclosed e. g. in WO 97/35990, US-A 5, 369, 108, US-A 5, 608, 108, US-A 5, 700, 811, WO 01/18171, WO 98/55449, WO 93/12075, WO 01/49290, WO 02/26696, WO 02/26703, JP 10182583, WO 99/12884, WO 01/38322, WO 01/70675, WO 02/46144, WO 02/22577 and WO 02/30879. All HD AC inhibitors disclosed in these publications are included herein by reference.
- HDAC inhibitors are carbamic acid compounds comprising a sulfonamide linkage which are disclosed e. g. in WO 02/30879.
- Other HDAC inhibitors which can be included within the compositions of the present invention are cyclic peptide inhibitors, and here it can be referred e. g. to US-A 5,620, 953, US-A 5, 922, 837, WO 01/07042, WO 00/08048, WO 00/21979, WO 99/11659, WO 00/52033 and WO 02/0603. All HDAC inhibitors disclosed in these publications are included herein by reference.
- Suitable HDAC inhibitors are also those which are based on a benzamide structure which are disclosed e. g. in Proc. Natl. Acad. Sci. USA (1999), 96: 4592-4597, but also in EP-A 847992, US 6, 174, 905, JP 11269140, JP 11335375, JP 11269146, EP 974576, WO 01/38322, WO 01/70675 and WO 01/34131. All HDAC inhibitors, which are disclosed in these documents, are included herein by reference.
- the HDAC inhibitors may be used under any pharmaceutically acceptable form, including without limitation, their free form and their pharmaceutically acceptable salts or solvates.
- pharmaceutically acceptable salts refers to salts prepared from pharmaceutically acceptable, preferably non-toxic, bases or acids including mineral or organic acids or organic or inorganic bases. Such salts are also known as acid addition and base addition salts.” Examples of pharmaceutically acceptable salts are discussed in Berge et al., 1977, “Pharmaceutically Acceptable Salts,” J. Pharm. Sci., Vol. 66, pp. 1-19.
- solvate refers to a molecular complex comprising the drug substance and a stoichiometric or non-stoichiometric amount of one or more pharmaceutically acceptable solvent molecules (e.g., ethanol).
- solvent molecules e.g., ethanol
- hydrate refers to a solvate comprising the drug substance and a stoichiometric or non-stoichiometric amount of water.
- suitable HDAC inhibitors according to the invention include, but are not limited to the compounds listed in Table 1 below: Table 1: Examples of HDAC inhibitors useful within the context of the invention
- the HDAC inhibitor is selected from the group consisting of belinostat (PXD-101), vorinostat (SAHA), entinostat (MS-275) panabinostat (LBH-589), mocetinostat (MGCD010S), chidamide (HBI-8000) and romidepsin (FK-228).
- KRAS (Kirsten rat sarcoma 2 viral oncogene homolog) belongs to RAS proteins (the four isoforms KRAS4A, KRAS4B, NRAS and HRAS encoded by three genes KRAS, NRAS and HRAS) acting as molecular switches that drive several key cellular processes such as cell growth, proliferation and survival. With about a third of all cancers driven by harmful mutations in the RAS family of genes, KRAS is the most frequently mutated oncogene in human tumors, causing tumor genesis and tumor maintenance. 20% of all solid tumors contain oncogenic KRAS mutations.
- the KRAS inhibitor is known to be associated with an acquired resistance during the cancertreatment.
- the KRAS inhibitor is associated with the occurrence of persister cancer cells during a treatment of cancer with this KRAS inhibitor.
- the KRAS inhibitor is a direct KRAS inhibitor selected from the group consisting of specific covalent KRAS inhibitors and multivalent small-molecule pan KRAS inhibitors.
- KRAS inhibitor of the present invention is selected from the group consisting of AMG 510 (Amgen/Carmot Therapeutics), MRTX-849 (Mirati Therapeutics), ARS- S248/JNJ-74699157 (Johnson & Johnson/ Wellspring Biosciences), Compound B (Sanofi/X-Chem Pharmaceuticals), LY3499446 (Eli Lilly), ARS-853, ARS-1620, BI-2852, BI-1701963 (Boehringer Ingelheim), mRNA-5671 (Moderna Therapeutics), G12D inhibitor (Mirati), RAS(On)inhibitors (Revolution medicines) and BBP-454 (BridgeBio Pharma).
- AMG 510 Amgen/Carmot Therapeutics
- MRTX-849 Morati Therapeutics
- ARS- S248/JNJ-74699157 Johnson & Johnson/ Wellspring Biosciences
- Compound B Sanofi/X-Chem Pharmaceuticals
- LY3499446 Eli Lilly
- the KRAS inhibitor is a KRASG12C inhibitor directly targeting and binding mutant KRASG12C protein.
- Protein kinase inhibitors
- the kinase inhibitor of the present invention is a kinase inhibitor for treating cancer.
- the kinase can be a tyrosine kinase, a serine/threonine kinase or a kinase with dual specificity.
- the kinase inhibitor is known to be associated with an acquired resistance during the cancer treatment.
- the kinase inhibitor is associated with the occurrence of persister cancer cells during a treatment of cancer with this kinase inhibitor.
- the kinase inhibitors may target any one of the following kinases: EGFR family, ALK, B-Raf, MEK, FGFR1, FGFR2, FGFR3, FGFR4, FLT3, IGF1R, c-Met, JAK family, PDGFR ⁇ and ⁇ , RET, AXL, c-KIT, TrkA, TrkB, TrkC, ROS1, BTK and Syk.
- the kinase inhibitor is an inhibitor targeting a receptor tyrosine kinase, especially one selected from the group consisting of EGFR family, ALK, FGFR1, FGFR2, FGFR3, FGFR4, c-Met, RET, IGF1R, PDGFR ⁇ and ⁇ , c-KIT, FLT3, AXL, TrkA, TrkB, TrkC, and ROS1.
- a receptor tyrosine kinase especially one selected from the group consisting of EGFR family, ALK, FGFR1, FGFR2, FGFR3, FGFR4, c-Met, RET, IGF1R, PDGFR ⁇ and ⁇ , c-KIT, FLT3, AXL, TrkA, TrkB, TrkC, and ROS1.
- the kinase inhibitor is an inhibitor targeting a tyrosine kinase selected from the group consisting of EGFR, ALK, B-Raf, MEK, c-Met, JAK, PDGFR ⁇ and ⁇ , RET and BTK.
- a group of tyrosine kinases evolutionary and structurally related to ALK is RET, ROS1, AXL and Trk families kinases.
- the kinase inhibitor is a small organic molecule.
- the term excludes biological macromolecules (e.g.; proteins, nucleic acids, etc.).
- Preferred small organic molecules range in size up to 2000 Da, and most preferably up to about 1000 Da.
- the kinase inhibitor may target EGFR (epidermal growth factor receptor), also called ErbB-1 and HER1 (see UniprotKB - P00533).
- EGFR epimal growth factor receptor
- the EGFR kinase inhibitors are well-known. For instance, reviews are published disclosing such EGFR kinase inhibitors (Expert Opinion on Therapeutic Patents Dec 2002, Vol. 12, No. 12, Pages 1903-1907; Kane, Expert Opinion on Therapeutic Patents Feb 2006, Vol. 16, No. 2, Pages 147-164; Traxler, Expert Opinion on Therapeutic Patents Dec 1998, Vol. 8, No. 12, Pages 1599-1625; Singh et al, Mini Rev Med Chem. 2016;16(14):1134-66; Cheng et al, Curr Med Chem.
- Patent applications also disclose EGFR kinase inhibitors, for instance and non-exhaustively WO19010295, WO19034075, WO18129645, WO18108064, WO18050052, WO18121758, WO18218963, WO17114383, WO17049992, WO17008761,
- Specific examples of EGFR kinase inhibitors are disclosed in the following table.
- the kinase inhibitors may target ALK (Anaplastic lymphoma kinase, also known as ALK tyrosine kinase receptor or CD246; UniprotKB - Q9UM73).
- ALK Anaplastic lymphoma kinase, also known as ALK tyrosine kinase receptor or CD246; UniprotKB - Q9UM73.
- the ALK kinase inhibitors are well-known. For instance, reviews are published disclosing such ALK kinase inhibitors (Beardslee et al, J Adv Pract Oncol. 2018 Jan-Feb;9(l):94-101; Pacenta et al, Drug Des Devel Ther. 2018 Oct 23;12:3549-3561; Spagnuolo et al, Expert Opin Emerg Drugs.
- Patent applications also disclose ALK kinase inhibitors, for instance and non-exhaustively WO04080980, WO05016894, WO05009389, WO09117097, WO09143389, WO09132202, WO10085597, WO10143664, WO11138751,
- the kinase inhibitors may target B-Raf (Serine/threonine-protein kinase B-raf, also known as Proto-oncogene B-Raf, p94 or v-Raf murine sarcoma viral oncogene homolog B1; UniprotKB - P15056).
- B-Raf Serine/threonine-protein kinase B-raf, also known as Proto-oncogene B-Raf, p94 or v-Raf murine sarcoma viral oncogene homolog B1; UniprotKB - P15056.
- B-Raf kinase inhibitors are well-known.
- Patent applications also disclose B-Raf kinase inhibitors, for instance and non-exhaustively WO14164648, WO14164648, WO14206343, WO13040515, WO11147764, WO11047238, WO11025968, WO11025951, WO11025938, WO11025965, WO11090738, WO09143389, WO09111280, WO09111279, WO09111278, WO09111277, WO08068507, WO08020203, WO07119055, WO07113558, WO07071963, WO07113557, WO06079791, WO06067446, WO06040568, WO06024836, WO06024834,
- the kinase inhibitors may target MEK (Mitogen-activated protein kinase kinase, also known as MAP2K, MP2K, MAPKK, MAPK/ERK kinase, JNK-activating kinase, c-Jun N-terminal kinase kinase (JNKK), Stress-activated protein kinase kinase (SAPKK) ; UniprotKB - Q02750 (MP2K1), P36507 (MP2K2), P46734 (MP2K3), P45985 (MP2K4), Q13163 (MP2K5), P52564 (MP2K6), 014733 (MP2K7)).
- MEK Mitogen-activated protein kinase kinase
- MP2K Mitogen-activated protein kinase kinase
- MP2K Mitogen-activated protein kinase kinase
- MP2K Mit
- the kinase inhibitors target MEK-1 (also known as MAP2K1, MP2K1, MAPKK 1 or MKK1) and/or MEK-2 (also known as MAP2K2, MP2K2, MAPKK 2 or MKK2). Both MEK-1 and MEK-2 function specifically in the MAPK/ERK cascade.
- MEK kinase inhibitors are well-known. For instance, reviews are published disclosing such MEK kinase inhibitors (Kakadia et aI, Onco Targets Ther. 2018 Oct 17;11:7095-7107; Steeb et aI, Eur J Cancer. 2018 Nov;103:41-51; Sarkisian and Davar, Drug Des Devel Ther.
- Patent applications also disclose MEK kinase inhibitors, for instance and non-exhaustively WO15022662, WO15058589, WO14009319, WO14204263, WO13107283, WO13136249, WO13136254, WO12095505, WO12059041, WO11047238, WO11047055, WO11054828, WO10017051, WO10108652, WO10121646, WO10145197,
- Specific examples of MEK kinase inhibitors are disclosed in the following table.
- the kinase inhibitors may target FGFR (Fibroblast growth factor receptor; UniprotKB - P11362 (FGFR1), P21802 (FGFR2), P22607 (FGFR3), P22455 (FGFR4)).
- FGFR Fibroblast growth factor receptor
- the FGFR kinase inhibitors are well- known. For instance, reviews are published disclosing such FGFR kinase inhibitors (Katoh, Int J Mol Med. 2016 Jul;38(l):3-15 ; Rizvi et Borad, J Gastrointest Oncol. 2016 Oct;7(5):789-796; Tan et aI, Onco Targets Ther. 2019 Jan 18;12:635-645, Shen et al, J Hematol Oncol.
- Patent applications also disclose FGFR kinase inhibitors, for instance and non- exhaustively WO19034075, WO19034076, WO19001419, WO18028438, WO18049781,
- FGFR kinase inhibitors are disclosed in the following table.
- the FGFR kinase inhibitor can be selective one or several FGFR family members, especially members selected from FGFR1, FGFR2, FGFR3 and FGFR4.
- the kinase inhibitors may target FLT3 (Receptor-type tyrosine-protein kinase FLT3, also known as FL cytokine receptor, Fetal liver kinase-2 (FLK-2), Fms-like tyrosine kinase 3 (FLT-3), Stem cell tyrosine kinase 1 (STK-1) or CD antigen: CD135; UniprotKB - P36888).
- FLT3 kinase inhibitors are well-known. For instance, reviews are published disclosing such FLT3 kinase inhibitors (Stone, Best Pract Res Clin Haematol. 2018 Dec;31(4):401-404; Wu et al, J Hematol Oncol.
- Patent applications also disclose kinase inhibitors, for instance and non-exhaustively WO19034538,
- the kinase inhibitors may target IGF1R (Insulin-like growth factor 1 receptor also known as Insulin-like growth factor I receptor (IGF-I receptor) or CD antigen: CD221 ; UniprotKB - P08069 or C9J5X1).
- IGF1R Insulin-like growth factor 1 receptor also known as Insulin-like growth factor I receptor (IGF-I receptor) or CD antigen: CD221 ; UniprotKB - P08069 or C9J5X1).
- IGF1R kinase inhibitors are well-known. For instance, reviews are published disclosing such IGF1R kinase inhibitors (Qu et al, Oncotarget. 2017 Apr 25;8(17):29501-29518; Chen et al, Curr Top Med Chem. 2017 Nov 20;17(28):3099-3130), the disclosure of which being incorporated herein by reference.
- Patent applications also disclose IGF1R kinase inhibitors, for instance and non-exhaustively WO16082713, WO08076415, WO08000922, WO08076143, WO07121279, WO07083017, WO07075554, WO06080450, WO05095399, WO05097800,
- IGF1R kinase inhibitors are disclosed in the following table.
- the kinase inhibitors may target c-Met (Hepatocyte growth factor receptor, also known as HGF/SF receptor, Proto-oncogene c-Met, Scatter factor receptor or Tyrosine-protein kinase Met; UniprotKB - P08581).
- the c-Met kinase inhibitors are well-known. For instance, reviews are published disclosing such c-Met kinase inhibitors (Zhang et aI, Expert Opin Ther Pat.
- Patent applications also disclose c-Met kinase inhibitors, for instance and non-exhaustively WO18153293, WO18187355, WO14000713, WO14032498, WO14067417, WO14180182, WO1307089, WO13107285, WO13149581, WO12006960, WO12015677, WO12034055, WO12048258, WO12075683, WO11039527,
- the kinase inhibitors may target JAK (Tyrosine-protein kinase JAK2, also known as Janus kinase 2; UniprotKB - 060674).
- JAK Tyrosine-protein kinase JAK2
- the JAK kinase inhibitors are well-known. For instance, reviews are published disclosing such JAK kinase inhibitors (He et al, Expert Opin Ther Pat. 2019
- Patent applications also disclose JAK kinase inhibitors, for instance and non-exhaustively WO19034153, WO18215389, WO18215390, WO18204238, WO17006968, WO17079205, WO17091544, WO17097224, WO17129116, WO17140254,
- JAK kinase inhibitors are disclosed in the following table.
- the kinase inhibitors may target PDGFR (Platelet-derived growth factor receptor, also known as Platelet-derived growth factor receptor, CD140 antigen-like family member; UniprotKB - P16234 (PGFRA) P09619 (PGFRB)).
- PDGFR Platelet-derived growth factor receptor
- CD140 antigen-like family member CD140 antigen-like family member
- PGFRB UniprotKB - P16234
- PDGFR kinase inhibitors are well-known. For instance, reviews are published disclosing such PDGFR kinase inhibitors (Roskoski, Pharmacol Res. 2018 Mar;129:65- 83; Andrick et Khan, Ann Pharmacother. 2017 Dec;51(12):1090-1098; Khalique et Banerjee, Expert Opin Investig Drugs.
- Patent applications also disclose PDGFR kinase inhibitors, for instance and non-exhaustively WO11119894, WO08016192, WO07004749, WO03077892, WO03077892, WO0164200, WO0125238, WO0172711,
- the kinase inhibitors may target RET (Proto-oncogene tyrosine-protein kinase receptor Ret, also known as Cadherin family member 12 or Proto-oncogene c-Ret; UniprotKB - P07949).
- RET Proto-oncogene tyrosine-protein kinase receptor Ret
- Cadherin family member 12 or Proto-oncogene c-Ret UniprotKB - P07949
- the RET kinase inhibitors are well-known. For instance, reviews are published disclosing such RET kinase inhibitors (Roskoski et Sadeghi-Nejad, Pharmacol Res. 2018 Feb;128:l-17; Zschabitz et Grüllich; Recent Results Cancer Res. 2018;211:187-198; Grüllich, Recent Results Cancer Res.
- Patent applications also disclose RET kinase inhibitors, for instance and non-exhaustively WO18071454, WO18136663, WO18136661, WO18071447, WO18060714, WO18022761, WO18017983, WO17146116, WO17161269, WO17146116, WO17043550, WO17011776, WO17026718, WO14050781, WO07136103, WO06130673, the disclosure of which being incorporated herein by reference.
- RET kinase inhibitors are disclosed in the following table.
- the kinase inhibitors may target AXL (Tyrosine-protein kinase receptor UFO, also known as AXL oncogene; UniprotKB - P30530).
- AXL kinase inhibitors are well-known. For instance, reviews are published disclosing such AXL kinase inhibitors (Myers et aI , J Med Chem. 2016 Apr 28;59(8):3593-608; Grüllich, Recent Results Cancer Res. 2018;211:67-75), the disclosure of which being incorporated herein by reference.
- Patent applications also disclose AXL kinase inhibitors, for instance and non-exhaustively WO18121228, WO17059280, WO17028797, WO16166250, WO16104617, WO16097918, WO16006706, WO15143692, WO15119122, WO15100117,
- WO12028332 WO10090764, WO10083465, WO10005876, WO10005879, WO09127417,
- the kinase inhibitors may target c-KIT (Mast/stem cell growth factor receptor Kit, also known as Piebald trait protein (PBT), Proto-oncogene c-Kit, Tyrosine-protein kinase Kit or pl45 c-kit; UniprotKB - P10721).
- c-KIT Most/stem cell growth factor receptor Kit, also known as Piebald trait protein (PBT), Proto-oncogene c-Kit, Tyrosine-protein kinase Kit or pl45 c-kit; UniprotKB - P10721).
- PBT Piebald trait protein
- Proto-oncogene c-Kit Proto-oncogene c-Kit
- Tyrosine-protein kinase Kit or pl45 c-kit UniprotKB - P10721.
- the c-KIT kinase inhibitors are well-known. For instance, reviews are published disclosing such c-KIT
- Patent applications also disclose c-KIT kinase inhibitors, for instance and non-exhaustively
- Trk Tropomyosin receptor kinase
- TRK TRK-transforming tyrosine kinase protein
- UniprotKB - P04629 Trkl
- Q16620 Trk2
- Q16288 TrkB
- Trk kinase inhibitors are well-known. For instance, reviews are published disclosing such Trk kinase inhibitors (Bhangoo et Sigal, Curr Oncol Rep.
- the kinase inhibitors may target ROS1 (Proto-oncogene tyrosine-protein kinase ROS, also known as Proto-oncogene c-Ros, Proto-oncogene c-Ros-1, Receptor tyrosine kinase c-ros oncogene 1 and c-Ros receptor tyrosine kinase; UniprotKB - P08922).
- the ROS1 kinase inhibitors are well- known. For instance, reviews are published disclosing such ROS1 kinase inhibitors (Lin et Shaw, J Thorac Oncol.
- Patent applications also disclose ROS1 kinase inhibitors, for instance and non-exhaustively WO13183578, WO13180183, WO13158859, WO12037155, WO12005299, WO14141129, WO15144801, WO15144799, WO18170381, the disclosure of which being incorporated herein by reference.
- Specific examples of ROS1 kinase inhibitors are disclosed in the following table.
- the kinase inhibitors may target BTK (Tyrosine-protein kinase BTK, also known as Agammaglobulinemia tyrosine kinase (ATK), B-cell progenitor kinase (BPK) and Bruton tyrosine kinase; UniprotKB - Q06187).
- BTK Teyrosine-protein kinase BTK
- ATK Agammaglobulinemia tyrosine kinase
- BPK B-cell progenitor kinase
- Bruton tyrosine kinase UniprotKB - Q06187.
- BTK Teyrosine-protein kinase BTK
- AKT Agammaglobulinemia tyrosine kinase
- BPK B-cell progenitor kinase
- Bruton tyrosine kinase UniprotKB - Q06
- Patent applications also disclose BTK kinase inhibitors, for instance and non-exhaustively WO18002958, WO18001331, WO18009017, WO18035080, WO18088780, WO18090792, WO18095398, WO18133151, WO18145525, A1WO18154131, WO18175512, A1WO18192536, WO18192532, WO18196757, WO18208132, WO18233655, WO19034009, WO17007987, WO17046604, WO17066014, WO17077507, WO17123695, WO17127371, WO17128917, WO17190048, WO17106429,WO16019233, WO16057500, WO16065222, WO16066726, WO16106628,
- Specific examples of BTK kinase inhibitors are disclosed in the following table.
- the kinase inhibitors may target Syk (Tyrosine-protein kinase SYK, also known as Spleen tyrosine kinase, p72-Syk; UniprotKB - P43405).
- Syk kinase inhibitors are well-known. For instance, reviews are published disclosing such Syk kinase inhibitors (Bartaula-Brevik et al, Expert Opin Investig Drugs. 2018 Apr;27(4):377-387; Liu et Mamorska-Dyga, J Hematol Oncol. 2017; 10: 145, Geahlen, Trends Pharmacol Sci. 2014 Aug;35(8):414-22; Norman Expert Opin Ther Pat. 2014 May;24(5):573-95), the disclosure of which being incorporated herein by reference.
- Patent applications also disclose Syk kinase inhibitors, for instance and non-exhaustively WO19034153,
- the kinase inhibitor can be selected in the following table 2:
- the kinase inhibitor is an inhibitor targeting one or several targets selected in the list consisting of EGFR family, ALK, B-Raf, MEK, FGFR1, FGFR2, FGFR3, FGFR4, FLT3, IGF1R, c-Met, JAK family, PDGFR ⁇ and ⁇ , RET, AXL, c-KIT, TrkA, TrkB, TrkC, ROS1, BTK and Syk.
- the kinase inhibitor can be selected from the group consisting of gefitinib, erlotinib, lapatinib, vandetanib, afatinib, osimertinib, neratinib, dacomitinib, brigatinib, canertinib, naquotinib, toartinib, pelitinib, rociletinib, icotinib, AZD3759, AZ5104 (CAS N° 1421373-98-9), poziotinib, WZ4002, Crizotinib, entrectinib, ceritinib, alectinib, lorlatinib, TSR-011, CEP-37440, ensartinib, Vemurafenib, dabrafenib, regorafenib, PLX4720, Cobimetinib, Trametinib, Binimet
- the tyrosine kinase inhibitor is an inhibitor of a protein kinase selected from the group consisting of EGFR, ALK and B-Raf, in particular a protein kinase inhibitor selected from the group consisting of gefitinib, erlotinib, lapatinib, vandetanib, afatinib, osimertinib, neratinib, dacomitinib, brigatinib, canertinib, naquotinib, toartinib, pelitinib, rociletinib, icotinib, AZD3759, AZ5104 (CAS N° 1421373-98-9), poziotinib, WZ4002, Crizotinib, entrectinib, ceritinib, alectinib, lorlatinib, TSR-011, CEP-37440, ensart
- the protein kinase inhibitor is a EGFR inhibitor, in particular a EGFR inhibitor selected from the group consisting of gefitinib, erlotinib, lapatinib, vandetanib, afatinib, osimertinib, neratinib, dacomitinib, brigatinib, canertinib, naquotinib, clawartinib, pelitinib, rociletinib, icotinib, AZD3759, AZ5104 (CAS N° 1421373-98-9), poziotinib and WZ4002.
- a EGFR inhibitor selected from the group consisting of gefitinib, erlotinib, lapatinib, vandetanib, afatinib, osimertinib, neratinib, dacomitinib, brigatinib, canertini
- the treatment with a kinase inhibitor can also be a combination of several kinase inhibitors which target the same kinase or different kinases.
- a kinase inhibitor may target different kinases.
- cancer refers to or describe the physiological condition in mammals that is typically characterized by unregulated cell growth.
- examples of cancer include, for example, leukemia, lymphoma, blastoma, carcinoma and sarcoma.
- carcinoma including that of the bladder (including accelerated and metastatic bladder cancer), breast, colon (including colorectal cancer), kidney, liver, lung (including small and non-small cell lung cancer and lung adenocarcinoma), ovary, prostate, testis, genitourinary tract, lymphatic system, rectum, larynx, pancreas (including exocrine pancreatic carcinoma), esophagus, stomach, gall bladder, cervix, thyroid, and skin (including squamous cell carcinoma); hematopoietic tumors of lymphoid lineage including leukemia, acute lymphocytic leukemia, acute lymphoblastic leukemia, B-cell lymphoma, T-cell lymphoma (including cutaneous or peripheral T-cell lymphoma), Hodgkins lymphoma, non-Hodgkins lymphoma, hairy cell lymphoma, histi
- the cancer is a solid tumor.
- the cancer may be sarcoma and osteosarcoma such as Kaposi sarcome, AIDS-related Kaposi sarcoma, melanoma, in particular uveal melanoma, and cancers of the head and neck, kidney, ovary, pancreas, prostate, thyroid, lung, esophagus, breast in particular triple negative breast cancer (TNBC), bladder, colorectum, liver and biliary tract, uterine, appendix, and cervix, testicular cancer, gastrointestinal cancers and endometrial and peritoneal cancers.
- TNBC triple negative breast cancer
- the cancer may be sarcoma, melanoma, in particular uveal melanoma, and cancers of the head and neck, kidney, ovary, pancreas, prostate, thyroid, lung, esophagus, breast in particular (TNBC), bladder, colorectum, liver, cervix, and endometrial and peritoneal cancers.
- sarcoma melanoma
- melanoma in particular uveal melanoma
- cancers of the head and neck kidney, ovary, pancreas, prostate, thyroid, lung, esophagus, breast in particular (TNBC), bladder, colorectum, liver, cervix, and endometrial and peritoneal cancers.
- the cancer can be selected from the group consisting of leukemia, lymphoma, sarcoma, melanoma, and cancers of the head and neck, kidney, ovary, pancreas, prostate, thyroid, lung, esophagus, breast, bladder, brain, colorectum, liver, and cervix.
- the cancer can be selected from the group consisting of lung cancer, in particular non-small cell lung cancer, leukemia, in particular acute myeloid leukemia, chronic lymphocytic leukemia, lymphoma, in particular peripheral T-cell lymphoma, chronic myelogenous leukemia, squamous cell carcinoma of the head and neck, advanced melanoma with BRAF mutation, colorectal cancer, gastrointestinal stromal tumor, breast cancer, in particular HER2+ breast cancer, thyroid cancer, in particular advanced medullary thyroid cancer, kidney cancer, in particular renal cell carcinoma, prostate cancer, glioma, pancreatic cancer, in particular pancreatic neuroendocrine cancer, multiple myeloma, and liver cancer, in particular hepatocellular carcinoma.
- lung cancer in particular non-small cell lung cancer
- leukemia in particular acute myeloid leukemia, chronic lymphocytic leukemia, lymphoma, in particular peripheral T-cell lymphoma, chronic myelogenous leukemia,
- the effective dosage of the DBait nucleic acid molecule and optionally each of the combination partners employed according of the invention may vary depending on the particular compound or pharmaceutical composition employed, the mode of administration, the condition being treated, the severity of the condition being treated.
- the dosage regimen is selected in accordance with a variety of factors including the route of administration and the patient status.
- a physician, clinician or veterinarian of ordinary skill can readily determine and prescribe the effective amount of the single active ingredients required to prevent, counter or arrest the progress of the condition.
- Optimal precision in achieving concentration of the active ingredients within the range that yields efficacy without toxicity requires a regimen based on the kinetics of the active ingredients' availability to target sites.
- the DBait nucleic acid molecule can be administered by any suitable administration route including oral, parenteral, intravenous, intratumoral, subcutaneous, intracranial, intra-artery, topical, rectal, transdermal, intradermal, nasal, intramuscular, intra-osseous, and the like.
- a first agent can be administered prior to (e.g., 5 minutes, 15 minutes, 30 minutes, 45 minutes, 1 hour, 2 hours, 4 hours, 6 hours, 12 hours, 24 hours, 48 hours, 72 hours, 96 hours, 1 week, 2 weeks, 3 weeks, 4 weeks, 5 weeks, 6 weeks, 8 weeks, or 12 weeks before), essentially concomitantly with, or subsequent to (e.g., 5 minutes, 15 minutes, 30 minutes, 45 minutes, 1 hour, 2 hours, 4 hours, 6 hours, 12 hours, 24 hours, 48 hours, 72 hours, 96 hours, 1 week, 2 weeks, 3 weeks, 4 weeks, 5 weeks, 6 weeks, 8 weeks, or 12 weeks after) the administration of a second therapeutic agent, or any combination thereof.
- the first agent can be administered priorto the second therapeutic agent, for e.g. 1 week.
- the first agent can be administered prior to (for example 1 day prior) and then concom
- the Dbait molecule and the optional additional therapeutic agents may be administered by the same route or by distinct routes.
- a first therapeutic agent of the combination selected may be administered by intravenous injection while the other therapeutic agents of the combination may be administered orally.
- all therapeutic agents may be administered orally or all therapeutic agents may be administered by intravenous injection.
- Therapeutic agents may also be administered in alternation.
- the administration route could be oral, parenteral, intravenous, intratumoral, subcutaneous, intracranial, intra-artery, topical, rectal, transdermal, intradermal, nasal, intramuscular, intra-osseous, and the like.
- the treatment may include one or several cycles, for instance two to ten cycles, in particular two, three, four or five cycles.
- the cycles may be continued or separated. For instance, each cycle is separated by a period of time of one to eight weeks, preferably three to four weeks.
- Dbait32Hc molecules used as control molecule were obtained by automated solid phase oligonucleotide synthesis from Eurogentec (Seraing, Belgium).
- Dbait32Hc molecule as shown in Figure 1 required several separate steps of synthesis of strands, and further processes to reach double stranded molecule. Independent synthesis, purification and ultrafiltration steps were achieved for synthesize the first strand (strand A), and the complementary (strand B). Then a conjugation process to gather both strands was performed, followed by purification and ultrafiltration step, and then lyophilization step.
- Detritylation steps were performed with 3% DCA in toluene (v/v), oxidations were performed with 50 mM iodine in pyridine/water 9/1 and sulfurizations were performed with 50 mM DDTT in pyridine/ACN 1/1.
- the capping was done with 20% NMI in ACN, together with 20% Ac20 in 30% 2,6-lutidine/ACN (40/60).
- the cleavage and deprotection are performed with AMA, a mixture of aq ammoniac (30%)/aq methylamine (40%) (1/1) for 3 hours at 45°C.
- the crude solution was loaded onto a preparative RP-HPLC column (Waters Xbridge C18)). Purification was then performed eluting with a salt gradient from 100% of TEAA (100 mM) to 50/50 TEAA (100mM)/ACN 95% in TEAA (lOOmM).
- the pooled RP- fractions were incubated at pH 4.5 and 37°C to remove the DMT group and a second purification was performed by AEX-HPLC with a gradient from 100% NaOH (10 mM) to 100% NaBr (1.4M). The pooled fractions were neutralized and desalted using Sephadex G25.
- OX409TM Purity of OX409TM: 86.2% by AEX-HPLC; Molecular weight by ESI-MS: 20471.7 Da.
- the synthesis of OX409 required few steps of synthesis as shown in Figure 1: double stranded molecule was synthesized in single step, completed by purifications, ultrafiltration, and then lyophilization steps.
- DNA-PK ATPase activity is induced by double-stranded oligonucleotides.
- the activity of OX409 was measured by measuring the ATPase activity of DNA-PK.
- Dbait32Hc molecules obtained by automated solid phase oligonucleotide synthesis were used as control.
- DNA-PK ATPase activity was monitored using an internal developed assay measuring the kinetics of ATP hydrolysis by DNA-PK enzymes (principle of the assay as shown in Figure 2).
- the assay is an adaptation of the reference SignaTECT DNA-PK Assay (Promega) that measures the phosphorylation of a P53 substrate peptide (specific DNA-PK substrate) using 32 P ATP.
- Experimental conditions have been adapted to monitor DNA-PK kinase activity from the rate of ATP hydrolysis during the kinase reaction.
- DNA-PK enzyme 160U; Promega, V5811
- peptide substrate 140 ⁇ g; eurogentec
- pyruvate kinase 4.5U; sigma Aldrich, P0294
- NADH 200 ⁇ g/ml; Sigma Aldrich
- ATP 0.2mM; Sigma Aldrich
- Kinetic of ATP hydrolysis was measured using a spectrophotometer (BMG; absorbance at 340nm every minute) and calculated using the following formula:
- OX409 It was analyzed if OX409 could be detected by DNA-PK enzyme as a double-strand DNA break (DSB), since binding of Ku proteins followed by DNA-PKcs recruitment and activation of its kinase activity are the earliest events in DSB repair by NHEJ pathway.
- the activation of DNA-PK by OX409 compared to Dbait32Hc was monitored using the DNA-PK activity assay.
- Vmax 0.11 pmol/min/unit of DNA-PK.
- the Km value of OX409 (0.109 nM) was lower than Dbait32Hc (0.199nM), indicating a higher affinity of DNA-PK to OX409 compared to Dbait32Hc ( Figure 3).
- Cell culture, molecules and transfection Cell cultures were performed with the triple negative breast cancer cell line MDA-MB-231.
- Cells were grown in complete L15 Leibovitz medium and maintained at 37°C in a humidified atmosphere at 0% CO2.
- Dbait32Hc molecules were obtained by automated solid phase oligonucleotide synthesis from Eurogentec (Seraing, Belgium), and OX409 from Axolabs (Germany). Transfection of molecules into cells was performed with JetPRIME reagent (Polyplus, lllkirch, France) in a ratio of 2mI JetPRIME per ⁇ g of DNA in 2ml medium (in 60mm diameter culture plates) for 24 hours according to the manufacturer's instructions. Briefly, 1.10 6 MDA-MB-231 cells were seeded in 60mm diameter plates and incubated at 37°C during 24hours.
- DNA-PK and PARP proteins bind to DSBs with a high affinity. Upon binding, DNA-PK activates its down-stream targets such as histone H2AX, and PARP proteins are auto"PARylated” and activate other target proteins by the addition of polymers of poly(ADP-Ribose) (PAR) referred to as PARylation ( Figure 4).
- PARylation Figure 4
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