Azzindani/Open_Reaction_Data huggingface dataset:
Reaction SMILES: [CH2:1]([O:8][C:9]1[CH:14]=[C:13](Cl)[CH:12]=[CH:11][N:10]=1)[C:2]1[CH:7]=[CH:6][CH:5]=[CH:4][CH:3]=1.[CH3:16][N:17]([CH:28]1[CH2:33][CH2:32][NH:31][CH2:30][CH2:29]1)[C:18](=[O:27])[O:19][CH2:20][C:21]1[CH:26]=[CH:25][CH:24]=[CH:23][CH:22]=1.C([O-])([O-])=O.[Cs+].[Cs+].CC1(C)C2C(=C(P(C3C=CC=CC=3)C3C=CC=CC=3)C=CC=2)OC2C(P(C3C=CC=CC=3)C3C=CC=CC=3)=CC=CC1=2>C1(C)C=CC=CC=1.C(Cl)Cl.C1C=CC(/C=C/C(/C=C/C2C=CC=CC=2)=O)=CC=1.C1C=CC(/C=C/C(/C=C/C2C=CC=CC=2)=O)=CC=1.C1C=CC(/C=C/C(/C=C/C2C=CC=CC=2)=O)=CC=1.[Pd].[Pd]>[CH2:1]([O:8][C:9]1[CH:14]=[C:13]([N:31]2[CH2:30][CH2:29][CH:28]([N:17]([CH3:16])[C:18](=[O:27])[O:19][CH2:20][C:21]3[CH:26]=[CH:25][CH:24]=[CH:23][CH:22]=3)[CH2:33][CH2:32]2)[CH:12]=[CH:11][N:10]=1)[C:2]1[CH:7]=[CH:6][CH:5]=[CH:4][CH:3]=1
Reactant: Clc1ccnc(OCc2ccccc2)c1
Reactant: CN(C(=O)OCc1ccccc1)C1CCNCC1
Agent: [Pd]
Agent: CC1(C)c2cccc(P(c3ccccc3)c3ccccc3)c2Oc2c(P(c3ccccc3)c3ccccc3)cccc21
Agent: O=C(/C=C/c1ccccc1)/C=C/c1ccccc1
Solvent: ClCCl
Solvent: Cc1ccccc1
Product: CN(C(=O)OCc1ccccc1)C1CCN(c2ccnc(OCc3ccccc3)c2)CC1
Reaction time: 14 h
Yield: 32 %

Procedure:
A mixture of 2-(benzyloxy)-4-chloropyridine (800 mg, 3.653 mmol, 1.0 eq), benzyl methyl(piperidin-4-yl)carbamate (stage 3 AMN-52) (0.997 g, 4.018 mmol, 1.1 eq) and Cs2CO3 (2.374 g, 7.306 mmol, 2.0 eq) in toluene (10 ml) was degassed for 15 minutes with nitrogen. Pd2(dba)3 (166 mg, 0.182 mmol, 0.05 eq) and Xantphos (105 mg, 0.182 mmol, 0.05 eq) were then added and stirring was carried out for 14 hours at 90° C. After monitoring by TLC, the mixture was diluted with DCM (150 ml), washed with water (70 ml) and sat. NaCl solution (70 ml), dried over sodium sulfate and concentrated under reduced pressure. The crude product was purified by column chromatography (silica gel, 2.0% MeOH in DCM). Yield: 32% (500 mg, 1.160 mmol)
Reaction SMILES: [CH2:1]([N:8]1[C:13](=[O:14])[C:12]2=[CH:15][CH:16]=[C:17]([Cl:18])[N:11]2[N:10]=[C:9]1[CH:19]([CH:21]1[CH2:23][CH2:22]1)O)[C:2]1[CH:7]=[CH:6][CH:5]=[CH:4][CH:3]=1.N1C=CC=CC=1.S(Cl)([Cl:32])=O>C(Cl)Cl>[CH2:1]([N:8]1[C:13](=[O:14])[C:12]2=[CH:15][CH:16]=[C:17]([Cl:18])[N:11]2[N:10]=[C:9]1[CH:19]([Cl:32])[CH:21]1[CH2:23][CH2:22]1)[C:2]1[CH:7]=[CH:6][CH:5]=[CH:4][CH:3]=1
Reactant: O=c1c2ccc(Cl)n2nc(C(O)C2CC2)n1Cc1ccccc1
Reactant: O=S(Cl)Cl
Solvent: c1ccncc1
Solvent: ClCCl
Product: O=c1c2ccc(Cl)n2nc(C(Cl)C2CC2)n1Cc1ccccc1
Temperature: 0 °C
Reaction time: 0.33 h
Yield: 65 %

Procedure:
To a stirred solution of 3-benzyl-7-chloro-2-(cyclopropyl-hydroxy-methyl)-3H-pyrrolo[2,1-f][1,2,4]triazin-4-one (1.40 g, 4.24 mmol) and pyridine (1.5 mL, 18.5 mmol) in CH2Cl2 (20 mL) was added thionyl chloride (2 M, 4.5 mL, 9.0 mmol) at 0° C. under nitrogen and stirred for 20 min. The reaction mixture was then stirred at rt overnight, poured into ice water, and extracted with CH2Cl2 (3×40 mL). The organic layers were washed with brine and dried over MgSO4. Concentration and purification of the crude product by flash column chromatography (SiO2, EtOAc/hexane 1:9) gave the title compound as a white solid (0.96 g, 65%): 1H NMR (CDCl3) δ 7.22 (m, 3H), 7.04 (m, 3H), 6.48 (d, 1H, J=4.4 Hz), 6.05 (d, 1H, J=16.5 Hz), 4.68 (d, 1H, J=16.5 Hz), 3.81 (d, 1H, J=10.45 Hz), 1.96 (m, 1H), 1.19 (m, 1H), 0.72 (m, 1H), 0.57 (m, 1H), 0.22 (m, 1H), −0.35 (m, 1H); 3C NMR (CDCl3) δ 154.2, 148.2, 136.4, 129.2, 128.0, 125.8, 118.0, 117.6, 110.6, 109.0, 62.5, 44.1, 15.3, 7.22, 6.19; MS (ESI+) 348.02 (M++H), 370.01 (M++Na).
Reaction SMILES: [Cl:1][C:2]1[CH:3]=[C:4]([O:12][CH3:13])[C:5]([O:10][CH3:11])=[C:6]([CH:9]=1)[CH:7]=[O:8].[CH3:14][Mg]Br>C(OCC)C>[Cl:1][C:2]1[CH:3]=[C:4]([O:12][CH3:13])[C:5]([O:10][CH3:11])=[C:6]([CH:7]([OH:8])[CH3:14])[CH:9]=1
Reactant: COc1cc(Cl)cc(C=O)c1OC
Reactant: C[Mg]Br
Solvent: CCOCC
Product: COc1cc(Cl)cc(C(C)O)c1OC
Temperature: 0 °C
Reaction time: 0.5 h
Yield: 75 %

Procedure:
To a stirred solution of 5-chloro-2,3-dimethoxy-benzaldehyde (7.0 g, 34.90 mmol) in dry diethyl ether (500 mL) at 0° C. was added methylmagnesium bromide of 3.0 M in diethyl ether (29 mL, 87.22 mmol). The reaction mixture was brought to room temperature and stirred for 30 min; refluxed for 3 h; then cooled to 0° C. and quenched by adding saturated aqueous NH4Cl. The two liquid layers were separated. The aqueous layer was extracted with diethyl ether. The combined organic layers were washed with water, dried, and concentrated to the crude compound which was purified by silica gel column (10-25% ethyl acetate in hexanes) to afford 1-(5-chloro-2,3-dimethoxy-phenyl)-ethanol (5.67 g, 75%): 1H NMR (400 MHz, CDCl3): δ 7.00 (d, 1 H), 6.81 (d, 1 H), 5.11 (m, 1 H), 3.86 (s, 6 H), 2.30 (d, 1 H), 1.48 (d, 3 H).
Reaction SMILES: [CH3:1][N:2]([CH3:27])[CH2:3][CH2:4][NH:5][C:6]([C:8]1[C:21]2[C:12](=[N:13][C:14]3[C:19]([N:20]=2)=[C:18]2[CH:22]=[CH:23][CH:24]=[C:25]([NH2:26])[C:17]2=[CH:16][CH:15]=3)[CH:11]=[CH:10][CH:9]=1)=[O:7].N1C=CC=CC=1.[C:34](Cl)(=[O:36])[CH3:35]>O1CCCC1>[CH3:1][N:2]([CH3:27])[CH2:3][CH2:4][NH:5][C:6]([C:8]1[C:21]2[C:12](=[N:13][C:14]3[C:19]([N:20]=2)=[C:18]2[CH:22]=[CH:23][CH:24]=[C:25]([NH:26][C:34](=[O:36])[CH3:35])[C:17]2=[CH:16][CH:15]=3)[CH:11]=[CH:10][CH:9]=1)=[O:7]
Reactant: CN(C)CCNC(=O)c1cccc2nc3ccc4c(N)cccc4c3nc12
Reactant: CC(=O)Cl
Solvent: C1CCOC1
Solvent: c1ccncc1
Product: CC(=O)Nc1cccc2c1ccc1nc3cccc(C(=O)NCCN(C)C)c3nc12
Reaction time: 1 h

Procedure:
To a solution of 4-amino-benzo[a]phenazine-11-carboxylic acid (2-dimethylamino-ethyl)-amide (20 mg) in tetrahydrofuran (5 mL) was added pyridine (0.1 mL) and acetyl chloride (20 μL). After stirring for 1 hour the reaction mixture was extracted into ethyl acetate, washed with sodium bicarbonate solution, dried (MgSO4) and the solvent removed in vacuo The residue was triturated with ether to yield the title compound as a yellow solid (10 mg).
Reaction SMILES: C([Li])CCC.Br[C:7]1[CH:12]=[CH:11][C:10]([C:13]#[C:14][Si:15]([CH:22]([CH3:24])[CH3:23])([CH:19]([CH3:21])[CH3:20])[CH:16]([CH3:18])[CH3:17])=[CH:9][CH:8]=1.[Br:25][C:26]1[CH:27]=[C:28]([CH:31]=[CH:32][C:33]=1[O:34][CH3:35])[CH:29]=[O:30].O>CCCCCC.O1CCCC1>[Br:25][C:26]1[CH:27]=[C:28]([CH:29]([C:7]2[CH:12]=[CH:11][C:10]([C:13]#[C:14][Si:15]([CH:22]([CH3:24])[CH3:23])([CH:19]([CH3:21])[CH3:20])[CH:16]([CH3:18])[CH3:17])=[CH:9][CH:8]=2)[OH:30])[CH:31]=[CH:32][C:33]=1[O:34][CH3:35]
Reactant: COc1ccc(C=O)cc1Br
Reactant: CC(C)[Si](C#Cc1ccc(Br)cc1)(C(C)C)C(C)C
Agent: [Li]CCCC
Solvent: CCCCCC
Solvent: C1CCOC1
Solvent: O
Product: COc1ccc(C(O)c2ccc(C#C[Si](C(C)C)(C(C)C)C(C)C)cc2)cc1Br
Temperature: -78 °C
Reaction time: 1 h

Procedure:
14.8 mL of a 1.6 M solution of n-butyllithium in hexane are added dropwise under argon to a solution of 8.0 g 1-bromo-4-triisopropylsilylethynyl-benzene in 80 mL dry tetrahydrofuran chilled to −78° C. The solution is stirred for 1 h at −70° C. Then 5.1 g 3-bromo-4-methoxy-benzaldehyde dissolved in 20 mL tetrahydrofuran are added dropwise over 15 min. The resulting solution is left in the cooling bath to warm to ambient temperature overnight. Then water is added and the mixture is extracted with ethyl acetate. The combined organic phases are dried over sodium sulfate and the solvent is removed. The residue is purified over silica gel (cyclohexane/ethyl acetate 9:1->1:1).
Reaction SMILES: Br[C:2]1[C:3]([NH:14][C:15]2[CH:19]=[C:18]([CH:20]3[CH2:22][CH2:21]3)[NH:17][N:16]=2)=[N:4][C:5]([C:8]2[CH:13]=[CH:12][CH:11]=[CH:10][CH:9]=2)=[N:6][CH:7]=1.[CH2:23]([Sn](CCCC)(CCCC)/C=C/C)[CH2:24][CH2:25]C>[N+](CCCC)(CCCC)(CCCC)CCCC.[Br-].Cl[Pd](Cl)([P](C1C=CC=CC=1)(C1C=CC=CC=1)C1C=CC=CC=1)[P](C1C=CC=CC=1)(C1C=CC=CC=1)C1C=CC=CC=1.O1CCOCC1>[CH:20]1([C:18]2[NH:17][N:16]=[C:15]([NH:14][C:3]3[C:2](/[CH:23]=[CH:24]/[CH3:25])=[CH:7][N:6]=[C:5]([C:8]4[CH:13]=[CH:12][CH:11]=[CH:10][CH:9]=4)[N:4]=3)[CH:19]=2)[CH2:22][CH2:21]1
Reactant: Brc1cnc(-c2ccccc2)nc1Nc1cc(C2CC2)[nH]n1
Reactant: C/C=C/[Sn](CCCC)(CCCC)CCCC
Agent: Cl[Pd](Cl)([P](c1ccccc1)(c1ccccc1)c1ccccc1)[P](c1ccccc1)(c1ccccc1)c1ccccc1
Agent: CCCC[N+](CCCC)(CCCC)CCCC
Agent: [Br-]
Solvent: C1COCCO1
Product: C/C=C/c1cnc(-c2ccccc2)nc1Nc1cc(C2CC2)[nH]n1

Procedure:
The mixture of 5-bromo-N-(5-cyclopropyl-1H-pyrazol-3-yl)-2-phenylpyrimidin-4-amine (0.3 g, 0.84 mmol, 1.0 equiv.), (E)-tributyl(prop-1-enyl)stannane (0.5 g, 1.5 mmol, 1.5 eq), Bu4NBr (0.32 g, 0.84 mmol, 1.0 eq), Pd(PPh3)2Cl2 (0.1 g, 0.034 mmol, 0.04 eq) and dioxane (10 mL) was heated to reflux for 18 h. Then, silica gel was added to the reaction mixture and evaporated to dry. The residue was purified by silica gel chromatography (hexane/EtOAc/Et3N=100:100:1 as eluent) to generate (E)-N-(5-cyclopropyl-1H-pyrazol-3-yl)-2-phenyl-5-(prop-1-enyl)pyrimidin-4-amine (Compound 11) (0.1 g, 37.5%). LC-MS (m/z): 357.2 [M+H]+. 1H NMR (300 MHz, DMSO-d6): δ 0.71-0.72 (m, 2H), 0.94-1.02 (m, 2H), 1.74-1.80 (m, 3H), 1.87-1.96 (m, 1H), 5.98 (d, J=11.4 Hz, 1H), 6.48 (d, J=11.4 Hz, 1H), 7.47-7.49 (m, 3H), 8.24-8.32 (m, 2H), 8.71 (s, 1H), 12.12 (s, 1H).
Reaction SMILES: [Cl:1][C:2]1[CH:9]=[C:8]([CH2:10][CH2:11][N:12]2[CH2:17][CH2:16][NH:15][CH2:14][C:13]2=[O:18])[CH:7]=[CH:6][C:3]=1[C:4]#[N:5].[O:19]=[C:20]1[C:24]2[CH:25]=[CH:26][C:27]([CH2:29][CH:30]=O)=[CH:28][C:23]=2[CH2:22][O:21]1.[BH3-]C#N.[Na+].C(O)(=O)C>CO.C(Cl)Cl>[Cl:1][C:2]1[CH:9]=[C:8]([CH2:10][CH2:11][N:12]2[CH2:17][CH2:16][N:15]([CH2:30][CH2:29][C:27]3[CH:26]=[CH:25][C:24]4[C:20](=[O:19])[O:21][CH2:22][C:23]=4[CH:28]=3)[CH2:14][C:13]2=[O:18])[CH:7]=[CH:6][C:3]=1[C:4]#[N:5]
Reactant: N#Cc1ccc(CCN2CCNCC2=O)cc1Cl
Reactant: O=CCc1ccc2c(c1)COC2=O
Agent: [BH3-]C#N
Agent: [Na+]
Solvent: ClCCl
Solvent: CO
Solvent: CC(=O)O
Product: N#Cc1ccc(CCN2CCN(CCc3ccc4c(c3)COC4=O)CC2=O)cc1Cl
Temperature: 25 °C
Reaction time: 3 h

Procedure:
A mixture of 2-Chloro-4-[2-(2-oxopiperazin-1-yl)ethyl]benzonitrile (70 mg, 0.265 mmol), (1-Oxo-1,3-dihydro-2-benzofuran-5-yl)acetaldehyde (82 mg, 0.466 mmol), NaBH3CN (43 mg, 0.68 mmol) and acetic acid (28 mg, 0.466 mmol) in methanol (2 mL) and DCM (2 mL) was stirred at RT for 3 hours. Then the mixture was purified by prep-TLC to give the title product. 1H-NMR (MeOD, 400 MHz) δ ppm 7.83 (d, J=7.6 Hz, 1H), 7.71 (d, J=7.6 Hz, 1H), 7.58 (d, J=1.6 Hz, 1H), 7.54 (s, 1H), 7.50 (d, J=7.6 Hz, 1H), 7.38 (dd, J=1.6, 7.6 Hz, 1H), 5.36 (s, 2H), 3.78 (s, 2H), 3.68 (t, J=7.2 Hz, 2H), 3.56 (t, J=5.6 Hz, 2H), 3.40-3.42 (m, 2H), 3.30-3.33 (m, 2h), 3.13-3.18 (m, 2H), 2.98 (t, J=7.6 Hz, 2H).
Reaction SMILES: [F:1][C:2]([F:14])([F:13])[CH2:3][N:4]1[CH:8]=[CH:7][C:6]([C:9]([O:11]C)=[O:10])=[N:5]1.[OH-].[Li+]>C1COCC1.CO.O>[F:14][C:2]([F:1])([F:13])[CH2:3][N:4]1[CH:8]=[CH:7][C:6]([C:9]([OH:11])=[O:10])=[N:5]1
Reactant: COC(=O)c1ccn(CC(F)(F)F)n1
Agent: [Li+]
Agent: [OH-]
Solvent: CO
Solvent: C1CCOC1
Solvent: O
Product: O=C(O)c1ccn(CC(F)(F)F)n1
Temperature: 25 °C
Reaction time: 16 h
Yield: 68.7 %

Procedure:
Methyl 1-(2,2,2-trifluoroethyl)-1H-pyrazole-3-carboxylate (Intermediate 204, 0.312 g, 1.5 mmol) was dissolved in a mixture of THF (2 mL), MeOH (2 mL) and water (1 mL); lithium hydroxide (0.188 g, 4.5 mmol) was added and the mixture was stirred at room temperature for 16 h. The mixture was concentrated, the residue dissolved in water (1 mL) and the mixture was neutralised. This was extracted with EtOAc (2×10 mL), the organic extracts were dried over sodium sulfate and concentrated under vacuum. The crude material was washed with pentane (2×10 mL) to afford 1-(2,2,2-trifluoroethyl)-1H-pyrazole-3-carboxylic acid (0.200 g, 69%). 2-N-methyl-2-N-phenyl-6-{5-[1-(2,2,2-trifluoroethyl)-1H-pyrazol-3-yl]-1,2,4-oxadiazol-3-yl}-1,3,5-triazine-2,4-diamine was then prepared from 1-(2,2,2-trifluoroethyl)-1H-pyrazole-3-carboxylic acid (0.159 g, 0.820 mmol) and 4-amino-N-hydroxy-6-[methyl(phenyl)amino]-1,3,5-triazine-2-carboximidamide (prepared in an analogous manner to Intermediate 1, 0.125 g, 0.483 mmol) according to the method described for Example 251 to afford the title compound (0.110 g, 55%).
Reaction SMILES: [C:1]([C:3]1[C:8](=[O:9])[NH:7][C:6]([C:10]([O:12][CH2:13][CH3:14])=[O:11])=[CH:5][C:4]=1[CH3:15])#[N:2].F[B-](F)(F)F.[CH3:21][O+](C)C.[OH-].[Na+]>C(Cl)Cl>[C:1]([C:3]1[C:4]([CH3:15])=[CH:5][C:6]([C:10]([O:12][CH2:13][CH3:14])=[O:11])=[N:7][C:8]=1[O:9][CH3:21])#[N:2]
Reactant: CCOC(=O)c1cc(C)c(C#N)c(=O)[nH]1
Reactant: C[O+](C)C
Agent: F[B-](F)(F)F
Agent: [Na+]
Agent: [OH-]
Solvent: ClCCl
Product: CCOC(=O)c1cc(C)c(C#N)c(OC)n1
Temperature: 25 °C
Reaction time: 24 h
Yield: 52.9 %

Procedure:
To a stirred suspension of ethyl 5-cyano-4-methyl-6-oxo-1,6-dihydropyridine-2-carboxylate (2.0 g, 9.70 mmol) in CH2Cl2 (25 mL) was added trimethyloxonium tetrafluoroborate (2.0 g, 13.52 mmol). The reaction was rinsed down with CH2Cl2 and stirred at RT for 24 hr. (The reaction eventually cleared up.) To the reaction was added 1N NaOH (75 mL). After stirring for 10 minutes the mixture was poured into a separatory funnel. The CH2Cl2 phase was removed, dried (Na2SO4), filtered and concentrated under vacuum. Purification by silica gel chromatography (Analogix SF25-40 g, 50 to 100% CH2Cl2 in hexanes) gave the product ethyl 5-cyano-6-methoxy-4-methylpicolinate (1.13 g, 5.13 mmol, 52.9% yield) as a white solid. 1H NMR (400 MHz, DMSO-d6) δ 7.75 (s, 1H), 4.37 (q, J=7.1 Hz, 2H), 4.03 (s, 3H), 2.55 (s, 3H), 1.33 (t, J=7.2 Hz, 3H). MS(ES)+ m/e 221.2 [M+H]+.
Reaction SMILES: I[C:2]1[C:10]2[C:5](=[N:6][CH:7]=[N:8][C:9]=2[NH2:11])[NH:4][N:3]=1.[C:12]([C:14]1[CH:19]=[C:18]([O:20][CH3:21])[CH:17]=[C:16]([O:22][CH3:23])[CH:15]=1)#[CH:13].C(N(CC)CC)C.C(Cl)(Cl)Cl>CN(C=O)C.[Cu]I.O>[CH3:23][O:22][C:16]1[CH:15]=[C:14]([C:12]#[C:13][C:2]2[C:10]3[C:5](=[N:6][CH:7]=[N:8][C:9]=3[NH2:11])[NH:4][N:3]=2)[CH:19]=[C:18]([O:20][CH3:21])[CH:17]=1
Reactant: Nc1ncnc2[nH]nc(I)c12
Reactant: C#Cc1cc(OC)cc(OC)c1
Agent: [Cu]I
Solvent: CCN(CC)CC
Solvent: ClC(Cl)Cl
Solvent: CN(C)C=O
Product: COc1cc(C#Cc2n[nH]c3ncnc(N)c23)cc(OC)c1
Temperature: 90 °C
Reaction time: 6 h
Yield: 20.4 %

Procedure:
PdCl2(dppf)CH2Cl2 (163 mg) was added to a mixture of 3-iodo-1H-pyrazolo[3,4-d]pyrimidin-4-amine (520 mg) synthesized by the method disclosed in WO 2007/126841, 1-ethynyl-3,5-dimethoxybenzene (504 mg), copper (I) iodide (57.3 mg), and triethylamine (0.56 ml) in DMF (10 ml). After nitrogen purging, the resulting mixture was stirred at 90° C. for 6 hours. Chloroform and water were added to the reaction mixture to separate the organic layer. After being washed with a saturated sodium chloride solution, the organic layer was dried over anhydrous sodium sulfate, and the solvent was then distilled off under reduced pressure. The resulting residue was purified by basic silica gel column chromatography (developing solvent: chloroform/methanol) to obtain the title compound as a dark-brown solid (120 mg). Physical properties: m/z [M+H]+ 296.0
Reaction SMILES: Br[C:2]1[CH:3]=[N:4][C:5]([O:8][C@H:9]2[CH:14]3[CH2:15][CH2:16][N:11]([CH2:12][CH2:13]3)[CH2:10]2)=[N:6][CH:7]=1.[NH:17]1[C:25]2[C:20](=[CH:21][C:22](B(O)O)=[CH:23][CH:24]=2)[CH:19]=[CH:18]1.N>>[N:11]12[CH2:16][CH2:15][CH:14]([CH2:13][CH2:12]1)[C@H:9]([O:8][C:5]1[N:4]=[CH:3][C:2]([C:22]3[CH:21]=[C:20]4[C:25](=[CH:24][CH:23]=3)[NH:17][CH:18]=[CH:19]4)=[CH:7][N:6]=1)[CH2:10]2
Reactant: Brc1cnc(O[C@@H]2CN3CCC2CC3)nc1
Reactant: OB(O)c1ccc2[nH]ccc2c1
Agent: N
Product: c1cc2cc(-c3cnc(O[C@@H]4CN5CCC4CC5)nc3)ccc2[nH]1

Procedure:
The product of Example 13E (283 mg, 1 mmol) was coupled with 5-indolylboronic acid (193 mg, 1.2 mmol) according to the procedure of Example 3A, The title product was purified by preparative HPLC (Gilson, column, Symmetry® C-8 7 μm, 40×100 mm. Eluting Solvent, MeCN/H2O (with 0.2% v. TFA) (v. 90/10 to 10/90 over 20 min.) Flow rate, 75 mL/min., uv, 250 nm) as solid (120 mg, yield, 38%). 1H NMR (300 MHz, CD3OD) δ 1.50–1.63 (m, 1H), 1.66–1.92 (m, 2H), 2.03–2.18 (m, 1H), 2.24–2.32 (m, 1H), 2.75–3.07 (m, 5H), 3.38–3.49 (m, 1H), 5.13–5.21 (m, 1H), 6.53 (dd, J=3.0, 0.7 Hz, 1H), 7.30 (d, J=3.4 Hz, 1H), 7.35 (dd, J=8.5, 1.7 Hz, 1H), 7.51 (dt, J=9.2, 0.7 Hz, 1H), 7.80 (dd, J=1.7, 0.7 Hz, 1H), 8.81 (s, 2H) ppm. MS (DCl/NH3): m/z 321 (M+H)+.
Reaction SMILES: Cl[C:2]1[N:3]=[C:4]([NH:12][CH2:13][CH2:14][CH2:15][CH2:16][CH3:17])[C:5]2[S:10][CH:9]=[C:8]([CH3:11])[C:6]=2[N:7]=1.[CH2:18]([NH2:21])[CH:19]=[CH2:20].C(=O)([O-])O.[Na+]>>[CH2:18]([NH:21][C:2]1[N:3]=[C:4]([NH:12][CH2:13][CH2:14][CH2:15][CH2:16][CH3:17])[C:5]2[S:10][CH:9]=[C:8]([CH3:11])[C:6]=2[N:7]=1)[CH:19]=[CH2:20]
Reactant: CCCCCNc1nc(Cl)nc2c(C)csc12
Reactant: C=CCN
Agent: O=C([O-])O
Agent: [Na+]
Product: C=CCNc1nc(NCCCCC)c2scc(C)c2n1
Yield: 52.8 %

Procedure:
In a sealed tube were heated 391 mg (1.2 mmol) of 2-chloro-7-methyl-4-pentylaminothieno[3,2-d]pyrimidine and 1.10 g (19.2 mmol) of allylamine at 160° C. for 16 hours. After completion of the reaction, the reaction mixture was allowed to resume room temperature, and a saturated aqueous sodium hydrogen carbonate solution was added thereto, followed by extraction with ethyl acetate (50 ml×2). The organic layer was washed with brine and dried over anhydrous sodium sulfate, and then the solvent was distilled off under reduced pressure. The residue was purified by silica gel chromatography (eluent: ethyl acetate-hexane=1/8) to give 184 mg (yield: 52.9%) of the title compound.
Reaction SMILES: [CH2:1]([N:8]=[C:9]=[O:10])[C:2]1[CH:7]=[CH:6][CH:5]=[CH:4][CH:3]=1.[CH3:11][NH:12][NH2:13].CO>C(Cl)(Cl)Cl.Cl>[CH2:1]([NH:8][C:9](=[O:10])[N:12]([CH3:11])[NH2:13])[C:2]1[CH:7]=[CH:6][CH:5]=[CH:4][CH:3]=1
Reactant: CNN
Reactant: O=C=NCc1ccccc1
Agent: Cl
Solvent: CO
Solvent: ClC(Cl)Cl
Product: CN(N)C(=O)NCc1ccccc1
Reaction time: 2 h

Procedure:
A solution of Benzyl isocyanate (1.85 mL, 15.0 mmol) in 7.5 mL of CHCl3 was treated with methyl hydrazine (795 μL, 15.0 mmol) at 0° C. and stirred at the same temperature for 2 h. The resulting mixture was dissolved in 1N HCl (200 mL) and the solution was washed with CHCl3 (50 mL×3). The aqueous phase was adjusted to pH 12 with 2 M NaOHaq and then extracted with CHCl3 (100 mL×3). The organic phase was dried over Na2SO4 and concentrated in vacuo. The residue was recrystallized from hexane-CHCl3 to afford (1.7 g, 9.5 mmol, 63%) as a colorless crystal. Rf=0.44 (CHCl3:MeOH=9:1); 1H NMR (400 MHz, DMSO-d6) δ 7.28-7.19 (5H, m), 4.47 (2H, s), 4.20 (2H, d, J=6.3 Hz), 2.96 (3H, s); 13C NMR (99.5 MHz, DMSO-d6) δ 159.3, 141.1, 128.1, 127.1, 126.5, 43.1, 37.8; LC/MS [ESI+] (m/z) 180.3 (M+1)+.
Reaction SMILES: C1(C([O:14][C:15]([C:17]2[N:22]3[C:23](=[O:45])[C@@H:24]([NH:25][C:26](=[O:44])/[C:27](/[C:31]4[N:32]=[C:33]([NH:36][C:37]([O:39][C:40]([CH3:43])([CH3:42])[CH3:41])=[O:38])[S:34][CH:35]=4)=[CH:28]\[CH2:29][CH3:30])[C@H:21]3[S:20][CH2:19][C:18]=2[CH2:46][O:47][C:48](=[O:50])[NH2:49])=[O:16])C2C=CC=CC=2)C=CC=CC=1.C1(OC)C=CC=CC=1.FC(F)(F)C(O)=O>ClCCl>[C:40]([O:39][C:37]([NH:36][C:33]1[S:34][CH:35]=[C:31](/[C:27](=[CH:28]/[CH2:29][CH3:30])/[C:26]([NH:25][C@@H:24]2[C:23](=[O:45])[N:22]3[C:17]([C:15]([OH:16])=[O:14])=[C:18]([CH2:46][O:47][C:48](=[O:50])[NH2:49])[CH2:19][S:20][C@H:21]23)=[O:44])[N:32]=1)=[O:38])([CH3:43])([CH3:42])[CH3:41]
Reactant: CC/C=C(\C(=O)N[C@@H]1C(=O)N2C(C(=O)OC(c3ccccc3)c3ccccc3)=C(COC(N)=O)CS[C@H]12)c1csc(NC(=O)OC(C)(C)C)n1
Solvent: O=C(O)C(F)(F)F
Solvent: COc1ccccc1
Solvent: ClCCl
Product: CC/C=C(\C(=O)N[C@@H]1C(=O)N2C(C(=O)O)=C(COC(N)=O)CS[C@H]12)c1csc(NC(=O)OC(C)(C)C)n1
Temperature: 0 °C
Reaction time: 0.5 h
Yield: 97.3 %

Procedure:
To an ice cold solution of 7beta-[(Z)-2-(2-t-butoxycarbonylaminothiazol-4-yl)-2-pentenoyl]amino-3-carbamoyloxymethyl-3-cephem-4-carboxylic acid diphenylmethyl ester (855 mg), anisole (3.3 ml), and dichloromethane (8.3 ml) is added trifluoroacetic acid (1.93 ml) with stirring. After reacting at the same temperature for 30 minutes, the mixture is concentrated in vacuum. The residue is washed with petroleum ether and ether to give pale brown 7beta-[(Z)-2-(2-t-butoxycarbonylaminothiazol-4-yl)-2-pentenoyl]amino-3-carbamoyloxymethyl-3-cephem-4-carboxylic acid (640 mg).
Reaction SMILES: C([O:3][C:4]([C:6]1[N:7]=[C:8]2[CH:13]=[CH:12][C:11]([F:14])=[CH:10][N:9]2[CH:15]=1)=[O:5])C>Cl>[F:14][C:11]1[CH:12]=[CH:13][C:8]2[N:9]([CH:15]=[C:6]([C:4]([OH:5])=[O:3])[N:7]=2)[CH:10]=1
Reactant: CCOC(=O)c1cn2cc(F)ccc2n1
Agent: Cl
Product: O=C(O)c1cn2cc(F)ccc2n1
Yield: 99.4 %

Procedure:
A solution of 6-fluoro-imidazo[1,2-a]pyridine-2-carboxylic acid ethyl ester (1 g) in 4N HCl was refluxed for 4 hours. The solvent was evaporated to give the sub-title compound as a white solid (0.86 g).
Reaction SMILES: [Cl:1][C:2]1[N:7]=[C:6]([Cl:8])[CH:5]=[C:4](Cl)[N:3]=1.CC1(C)C(C)(C)OB([C:18]2[CH:19]=[N:20][C:21]([NH2:24])=[N:22][CH:23]=2)O1>COCCOC.C([O-])([O-])=O.[Na+].[Na+].C1C=CC(P(C2C=CC=CC=2)[C-]2C=CC=C2)=CC=1.C1C=CC(P(C2C=CC=CC=2)[C-]2C=CC=C2)=CC=1.Cl[Pd]Cl.[Fe+2].C(Cl)Cl>[Cl:1][C:2]1[N:3]=[C:4]([C:18]2[CH:19]=[N:20][C:21]([NH2:24])=[N:22][CH:23]=2)[CH:5]=[C:6]([Cl:8])[N:7]=1
Reactant: Clc1cc(Cl)nc(Cl)n1
Reactant: CC1(C)OB(c2cnc(N)nc2)OC1(C)C
Agent: Cl[Pd]Cl
Agent: [Fe+2]
Agent: O=C([O-])[O-]
Solvent: ClCCl
Solvent: COCCOC
Product: Nc1ncc(-c2cc(Cl)nc(Cl)n2)cn1
Yield: 48 %

Procedure:
According to Method 5, the reaction of 2,4,6-trichloropyrimidine with 5-(4,4,5,5-tetramethyl-1,3,2-dioxaborolan-2-yl)pyrimidin-2-amine in the presence of Pd(dppf)Cl2-CH2Cl2 in DME and 2 M Na2CO3 (3:1) gave 2,6-dichloro-4,5′-bipyrimidin-2′-amine in 48% yield. LCMS (m/z): 241.1 (MH+), Rt 2.05 min.
Reaction SMILES: [CH3:1][O:2][CH2:3][C:4]1[N:5]=[C:6]([NH:18][C:19](=[O:21])[CH3:20])[S:7][C:8]=1[C:9]1[S:10][C:11]2[CH:12]=[N:13][CH:14]=[CH:15][C:16]=2[N:17]=1.C([O-])([O-])=O.[Cs+].[Cs+].[Cl:28][C:29]1[CH:30]=[C:31]([CH:48]=[CH:49][CH:50]=1)[CH2:32][CH:33]1[CH2:35][N@@:34]1S(C1C=CC([N+]([O-])=O)=CC=1)(=O)=O.C([O-])([O-])=O.[K+].[K+].SCCO>C(Cl)Cl.CO.CN(C=O)C>[NH2:34][C@@H:33]([CH2:32][C:31]1[CH:48]=[CH:49][CH:50]=[C:29]([Cl:28])[CH:30]=1)[CH2:35][N:18]([C:6]1[S:7][C:8]([C:9]2[S:10][C:11]3[CH:12]=[N:13][CH:14]=[CH:15][C:16]=3[N:17]=2)=[C:4]([CH2:3][O:2][CH3:1])[N:5]=1)[C:19](=[O:21])[CH3:20]
Reactant: COCc1nc(NC(C)=O)sc1-c1nc2ccncc2s1
Reactant: O=[N+]([O-])c1ccc(S(=O)(=O)[N@]2CC2Cc2cccc(Cl)c2)cc1
Agent: O=C([O-])[O-]
Agent: O=[N+]([O-])c1ccc(S(=O)(=O)[N@@]2CC2Cc2cccc(Cl)c2)cc1
Agent: OCCS
Solvent: CN(C)C=O
Solvent: ClCCl
Solvent: CO
Product: COCc1nc(N(C[C@@H](N)Cc2cccc(Cl)c2)C(C)=O)sc1-c1nc2ccncc2s1
Temperature: 50 °C
Yield: 60.5 %

Procedure:
N-(4-(methoxymethyl)-5-(thiazolo[5,4-c]pyridin-2-yl)thiazol-2-yl)acetamide (0.120 g, 0.375 mmol), Cs2CO3 (0.244 g, 0.749 mmol), and DMF (0.0289 mL, 0.375 mmol) were added to a 50 mL round-bottomed flask. The mixture was stirred at 50° C., and a DMF solution of (S)-2-(3-chlorobenzyl)-1-(4-nitrophenylsulfonyl)aziridine (0.264 g, 0.749 mmol) was added dropwise using an addition funnel. The reaction was stirred for 1 hour, and LCMS indicated very little remaining starting material. K2CO3 (0.259 g, 1.87 mmol) and 2-mercaptoethanol (0.293 g, 3.75 mmol) were added to the reaction mixture, and the reaction was stirred again for approximately 1 hour at 25° C. The color slowly changed from dark red-brown to a more clear orange and LCMS indicated that the nosyl group had been removed. The majority of the DMF was removed under reduced pressure, and the residue was extracted with EtOAc and washed with saturated sodium bicarbonate. The organic layer was dried over sodium sulfate, filtered, and loaded onto a plug of silica gel and chromatographed using a Redi-Sep® pre-packed silica gel column (12 g), eluting with a gradient of 2% to 10% 2 M NH3.MeOH in DCM, to provide semi-pure N—((S)-2-amino-3-(3-chlorophenyl)propyl)-N-(4-(methoxymethyl)-5-(thiazolo[5,4-c]pyridin-2-yl)thiazol-2-yl)acetamide (0.111 g, 0.227 mmol, 60.7% yield). The crude material was used without further purification, but a fraction was purified using reverse phase HPLC to give pure compound N—((S)-2-amino-3-(3-chlorophenyl)propyl)-N-(4-(methoxymethyl)-5-(thiazolo[5,4-c]pyridin-2-yl)thiazol-2-yl)acetamide. LCMS (M+H) 487.8 calc. for C22H23ClN5O2S2 488.1. 1H NMR (400 MHz, CD3OD): δ ppm 9.39 (s, 1H), 8.61 (d, J=6.6 Hz, 1H), 8.16 (d, J=6.6 Hz, 1H), 7.27 (m, 2H), 7.19 (m, 2H), 4.74 (s, 2H), 3.66 (m, 1H), 3.52 (s, 3H), 3.45 (dd, J=13.8, 7.8 Hz, 1H), 2.91 (dd, J=13.9, 5.8 Hz, 1H), 2.76 (dd, J=613.9, 8.7 Hz, 1H), 1.85 (s, 3H).