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      {
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        "literal": "Yuan-Hung Lo"
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      {
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      {
        "literal": "Zhicheng Ma"
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      {
        "literal": "Carlos J. Suarez"
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      {
        "literal": "Chris P. Barnes"
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      {
        "literal": "Calvin J. Kuo"
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      {
        "literal": "Christina Curtis"
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      {
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