| Brandon Crawford | SS | 6/18/2013 | day-to-day | Left game - Sprained right index finger |
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| Pablo Sandoval | 3B | 6/9/2013 | on 15-day DL | Strained left foot |
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| Angel Pagan | CF | 5/28/2013 | on 15-day DL | Strained right hamstring |
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| Ryan Vogelsong | P | 5/21/2013 | on 60-day DL | Fractured right hand - out 6-8 weeks |
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| Santiago Casilla | P | 5/21/2013 | on 15-day DL | Cyst on right knee |
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| Eric Surkamp | P | 3/22/2013 | on 60-day DL | Recovery from left elbow surgery |
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