I haven't done one of these in several years–this is an aggregation of reputational surveys done by U.S. News on graduate programs, which tend to give decent, if imperfect, information (based on my conversations with scholars in various fields).  The fields included here are from the Social Sciences & Humanities (Economics, English, History, Political Science, Psychology & Sociology, plus Philosophy from the 2011 PGR), the Sciences (Biology, Chemistry, Computer Science, Earth Sciences, Math, Physics, Statistics), Law, and Medicine.  Universities received 4 points for each program in the top five; 3 points for each additional program in the top ten; 2 points for each additional program in the top 15; 1 point for each additional program in the top 25; and .5 points for each additional programa in the top 35.  Note that the following schools have neither a medical nor law school:  Princeton, MIT, Cal Tech.  The following schools lack either a law school or a medical school:  Berkeley, UCSD, Brown, UT Austin, Johns Hopkins, Illinois/Urbana.

After each school name is the total number of points, the number of fields in which the school had a "top 25" program (maximum is 16), the number of fields in which the school had a top 35 program (if different), and the number of "top five" programs.

1.  Stanford University (63 total, top 25/16 fields, 15 top five programs)

2.  Harvard University (59 total, top 25/16 fields, 13 top five programs)

3.  University of California, Berkeley (56 total, top 25/15 fields, 12 top five programs)

4.  Princeton University (45 total, top 25/13 fields, 8 top five programs)

5.  Yale University (43.5 total, top 25/15 fields, top 35/16, 4 top five programs)

6.  Columbia University (43 total, top 25/16 fields, 3 top five programs)

6.  University of Michigan, Ann Arbor (43 total, top 25/16 fields, 4 top five programs)

8.  University of Chicago (40.5 total, top 25/15 fields, top 35/16, 5 top five programs)

9.  Massachussetts Institute of Technology (37.5 total, top 25/10 fields, top 35/11, 7 top five programs)

10. University of California, Los Angeles (34.5 total, top 25/15 fields, top 35/16, 1 top five program)

11. Cornell University (31 total, top 25/16 fields, 0 top five programs)

11. University of Pennsylvania (31 total, top 25/13 fields, top 35/15, 2 top five programs)

13. University of Wisconsin, Madison (29.5 total, top 25/15 fields, top 35/16, 1 top five program)

14. Duke University (25.5 total, top 25/13 fields, top 35/14, 0 top five programs)

15. University of North Carolina, Chapel Hill (23.5 total, top 25/11 fields, top 35/14, 0 top five programs) 

16. California Institute of Technology (23 total, top 25/7 fields, 4 top five programs)

16. University of Texas, Austin (23 total, top 25/12 fields, top 35/14, 0 top five programs)

18. Johns Hopkins University (22 total, top 25/9 fields, top 35/13, 3 top five programs)

19. Northwestern University (21.5 total, top 25/10 fields, top 35/15, 0 top five programs)

20. University of Washington, Seattle (20 total, top 25/10 fields, top 35/14, 0 top five programs)

21. University of Illinois, Urbana-Champaign (19.5 total, top 25/8 fields, top 35/13, 1 top five program)

22. New York University (19 total, top 25/9 fields, top 35/11, 1 top five program)

22. University of California, San Diego (19 total, top 25/11 fields, top 35/13, 0 top five programs)

24. University of Minnesota, Twin Cities (15 total, top 25/10 fields, top 35/14, 0 top five programs)

25. Washington University, St. Louis (14.5 total, top 25/6 fields, top 35/11, 1 top five program) 

Runners-up

Brown University (12 total, top 25/8, top 35/12, 0 top five programs)

Ohio State University (11.5 total, top 25/6 fields, top 35/15, 0 top five programs)

University of Virginia (11 total, top 25/5 fields, top 35/11, 0 top five programs)

Other schools studied:

Pennsylvania State University (10 total, top 25/5 fields, top 35/11, 0 top five programs)

Carnegie-Mellon University (9.5 total, top 25/4 fields, top 35/5, 1 top five program)

University of California, Davis (9.5 total, top 25/5 fields, top 35/14, 0 top five programs)

Indiana University, Bloomington (9 total, top 25/6, top 35/10, 0 top five programs)

University of Maryland, College Park (8.5 total, top 25/5, top 35/8, 0 top five programs)

Rutgers University, New Brunswick (8 total, top 25/4, top 35/6, 1 top five program)

Addendum:   We did look at some other schools–Southern California, Georgetown, Notre Dame, Emory, Purdue, Arizona, Colorado, UC Irvine, UC Santa Barbara, CUNY, among others–but it was clear they would not come close to 8 points total, and so we did not finalize the scores.