Harvard Biophysics 101 (MIT-OCW Health Sciences & Technology 508)

http://openwetware.org/wiki/Harvard:Biophysics_101/2007 10 AM Thu 8-Feb 2007Barker Center, Room 316 12 Quincy St.Genomics, Computing, Economics

Class outline(1) Topic priorities for homework since last class(2) Quantitative exercise(3) Project level presentation & discussion(4) Sub-project reports & discussion(5) Discuss communication/presentation tools(6) Topic priorities for homework for next class

Binomial, Poisson, Normal

Chart4

0.000004050.00000000210.0000000015

0.00001073710.00000004120.0000000311

0.00002707760.00000041220.0000003172

0.00006495570.00000274820.000002155

0.00014822120.0000137410.0000109763

0.00032172780.00005496410.0000447035

0.00066428140.00018321370.0001516456

0.00130467060.00052346760.0004407131

0.00243744560.0013086690.0011201459

0.0043316590.00290815330.0025294427

0.00732249130.00581630650.0051380902

0.01177466990.01057510280.0094835273

0.01801042230.01762517130.0160373792

0.02620500990.02711564810.0250218006

0.03626853670.03873664010.0362328671

0.04774864120.05164885350.0489448696

0.0597967080.06456106690.0619535754

0.07123260220.07595419640.0737700328

0.08071711290.08439355150.0829188416

0.08700369670.08883531740.0882528021

0.08920620580.08883531740.0891888167

0.08700369670.08460506420.0857997275

0.08071711290.07691369470.0787482347

0.07123260220.06688147370.0690992415

0.0597967080.05573456140.0580770982

0.04774864120.04458764910.0468371265

0.03626853670.03429819160.0363015025

0.02620500990.02540606790.0270801331

0.01801042230.01814719130.0194699514

0.01177466990.01251530440.0135089318

0.00732249130.00834353620.0090559876

0.0043316590.00538292660.0058720806

0.00243744560.00336432910.0036867324

0.00130467060.00203898740.0022434111

0.00066428140.00119940430.001324319

0.00032172780.00068537390.0007590469

0.00014822120.00038076330.0004227576

0.00006495570.0002058180.0002289793

0.00002707760.00010832530.000120698

0.00001073710.00005555140.0000619589

0.000004050.00002777570.0000309951

Normal (m=20, s=4.47)

Poisson (m=20)

Binomial (N=2020, p=.01)

ExtremeNorm

cum=1 means yes cumulative; cum=0 means No

Poisson(x,mean,cum)7E-019E-011E+00meanstdev

NormDist(x,mean,sd,cum)8E-011E+001E+000.577215664101.281.00

1E+021E+021E+0110.005.774.34E-1516.4510.00

mean5E-015E-015E-020.052E-022E-170.080.03

stdev5E-015E-011E-010.10778301079E-028E-020.11638219110.0899499444

xExtremeVal cumNorm (.58,1.3) cumExtremeVal(L=1,u=0)Normal(m=.58, s=1.3)NormExtr*XNorm*XExtr*(x-m)^2Norm*(x-m)^2

-101E+001E+000E+005E-160.000E+00-8E-220.000.00

-9.91E+001E+000E+001E-150.000E+00-2E-210.000.00

-9.81E+001E+000E+002E-150.000E+00-5E-210.000.00

-9.71E+001E+000E+004E-150.000E+00-1E-200.000.00

-9.61E+001E+000E+007E-150.000E+00-4E-200.000.00

-9.51E+001E+000E+001E-140.000E+00-1E-190.000.00

-9.41E+001E+000E+002E-140.000E+00-2E-190.000.00

-9.31E+001E+000E+004E-140.000E+00-6E-190.000.00

-9.21E+001E+000E+007E-140.000E+00-2E-180.000.00

-9.11E+001E+000E+001E-130.000E+00-4E-180.000.00

-91E+001E+000E+002E-130.000E+00-9E-180.000.00

-8.91E+001E+000E+004E-130.000E+00-2E-170.000.00

-8.81E+001E+000E+008E-130.000E+00-5E-170.000.00

-8.71E+001E+000E+001E-120.000E+00-1E-160.000.00

-8.61E+001E+000E+002E-120.000E+00-3E-160.000.00

-8.51E+001E+000E+004E-120.000E+00-7E-160.000.00

-8.41E+001E+000E+007E-120.000E+00-2E-150.000.00

-8.31E+001E+000E+001E-110.000E+00-4E-150.000.00

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-8.11E+001E+000E+004E-110.000E+00-2E-140.000.00

-81E+001E+000E+006E-110.000E+00-4E-140.000.00

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-3.61E+001E+005E-152E-030.00-2E-14-2E-030.000.01

-3.51E+001E+001E-132E-030.00-5E-13-3E-030.000.01

-3.41E+001E+003E-123E-030.00-1E-11-4E-030.000.01

-3.31E+001E+005E-113E-030.00-2E-10-6E-030.000.02

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-31E+001E+004E-086E-030.00-1E-07-1E-020.000.04

-2.91E+001E+002E-078E-030.01-7E-07-2E-020.000.05

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-2.61E+001E+002E-051E-020.01-5E-05-4E-020.000.09

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-2.21E+001E+001E-033E-020.04-2E-03-8E-020.010.17

-2.11E+001E+002E-034E-020.04-5E-03-9E-020.020.19

-21E+001E+005E-034E-020.05-9E-03-1E-010.030.22

-1.91E+001E+008E-035E-020.07-2E-02-1E-010.050.24

-1.81E+001E+001E-026E-020.08-3E-02-1E-010.080.26

-1.71E+001E+002E-026E-020.09-4E-02-2E-010.120.27

-1.61E+001E+003E-027E-020.11-6E-02-2E-010.170.28

-1.51E+009E-015E-028E-020.13-8E-02-2E-010.220.29

-1.41E+009E-017E-029E-020.15-1E-01-2E-010.270.29

-1.31E+009E-019E-021E-010.17-1E-01-2E-010.330.29

-1.21E+009E-011E-011E-010.19-1E-01-2E-010.380.28

-1.11E+009E-011E-011E-010.22-2E-01-2E-010.420.26

-19E-019E-012E-011E-010.24-2E-01-2E-010.450.24

-0.99E-019E-012E-012E-010.27-2E-01-2E-010.460.22

-0.89E-019E-012E-012E-010.29-2E-01-2E-010.460.19

-0.79E-018E-013E-012E-010.31-2E-01-2E-010.440.15

-0.68E-018E-013E-012E-010.33-2E-01-2E-010.410.12

-0.58E-018E-013E-012E-010.35-2E-01-2E-010.370.09

-0.48E-018E-013E-012E-010.37-1E-01-1E-010.320.06

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-0.27E-017E-014E-013E-010.39-7E-02-8E-020.220.02

-0.17E-017E-014E-013E-010.40-4E-02-4E-020.170.00

06E-017E-014E-013E-010.400E+000E+000.120.00

0.16E-016E-014E-013E-010.404E-024E-020.080.00

0.26E-016E-014E-013E-010.397E-028E-020.050.02

0.35E-016E-014E-013E-010.381E-011E-010.030.03

0.45E-016E-013E-013E-010.371E-011E-010.010.06

0.55E-015E-013E-013E-010.352E-012E-010.000.09

0.64E-015E-013E-013E-010.332E-012E-010.000.12

0.74E-015E-013E-013E-010.312E-012E-010.000.15

0.84E-014E-013E-013E-010.292E-012E-010.010.19

0.93E-014E-013E-013E-010.272E-012E-010.030.22

13E-014E-013E-013E-010.243E-012E-010.050.24

1.13E-013E-012E-013E-010.223E-012E-010.070.26

1.23E-013E-012E-013E-010.193E-012E-010.090.28

1.32E-013E-012E-013E-010.173E-012E-010.110.29

1.42E-013E-012E-013E-010.153E-012E-010.130.29

1.52E-012E-012E-012E-010.133E-012E-010.150.29

1.62E-012E-012E-012E-010.113E-012E-010.170.28

1.72E-012E-012E-012E-010.093E-012E-010.190.27

1.82E-012E-011E-012E-010.083E-011E-010.210.26

1.91E-012E-011E-012E-010.072E-011E-010.230.24

21E-011E-011E-012E-010.052E-011E-010.240.22

2.11E-011E-011E-012E-010.042E-019E-020.250.19

2.21E-011E-011E-011E-010.042E-018E-020.260.17

2.31E-019E-029E-021E-010.032E-017E-020.270.15

2.49E-028E-028E-021E-010.022E-015E-020.280.13

2.58E-027E-028E-021E-010.022E-014E-020.280.11

2.67E-026E-027E-029E-020.012E-014E-020.280.09

2.76E-025E-026E-028E-020.012E-013E-020.280.08

2.86E-024E-026E-027E-020.012E-012E-020.280.06

2.95E-024E-025E-026E-020.012E-012E-020.280.05

35E-023E-025E-025E-020.001E-011E-020.280.04

3.14E-022E-024E-024E-020.001E-011E-020.270.03

3.24E-022E-024E-024E-020.001E-018E-030.270.02

3.34E-022E-024E-023E-020.001E-016E-030.260.02

3.43E-021E-023E-023E-020.001E-014E-030.260.01

3.53E-021E-023E-022E-020.001E-013E-030.250.01

3.63E-029E-033E-022E-020.001E-012E-030.240.01

3.72E-027E-032E-022E-020.009E-022E-030.240.01

3.82E-026E-032E-021E-020.008E-021E-030.230.00

3.92E-025E-032E-021E-020.008E-028E-040.220.00

42E-024E-032E-029E-030.007E-025E-040.210.00

4.12E-023E-032E-027E-030.007E-024E-040.200.00

4.21E-022E-031E-026E-030.006E-022E-040.190.00

4.31E-022E-031E-025E-030.006E-022E-040.190.00

4.41E-021E-031E-024E-030.005E-021E-040.180.00

4.51E-021E-031E-023E-030.005E-027E-050.170.00

4.61E-029E-041E-022E-030.005E-025E-050.160.00

4.79E-037E-049E-032E-030.004E-023E-050.150.00

4.88E-035E-048E-031E-030.004E-022E-050.150.00

4.97E-034E-047E-031E-030.004E-021E-050.140.00

57E-033E-047E-038E-040.003E-027E-060.130.00

5.16E-032E-046E-036E-040.003E-025E-060.120.00

5.26E-032E-045E-035E-040.003E-023E-060.120.00

5.35E-031E-045E-034E-040.003E-022E-060.110.00

5.45E-038E-054E-033E-040.002E-021E-060.100.00

5.54E-036E-054E-032E-040.002E-026E-070.100.00

5.64E-034E-054E-031E-040.002E-023E-070.090.00

5.73E-033E-053E-031E-040.002E-022E-070.090.00

5.83E-032E-053E-038E-050.002E-021E-070.080.00

5.93E-032E-053E-036E-050.002E-026E-080.080.00

62E-031E-052E-034E-050.001E-024E-080.070.00

6.12E-038E-062E-033E-050.001E-022E-080.070.00

6.22E-036E-062E-032E-050.001E-021E-080.060.00

6.32E-034E-062E-031E-050.001E-026E-090.060.00

6.42E-033E-062E-031E-050.001E-023E-090.060.00

6.52E-032E-062E-037E-060.001E-022E-090.050.00

6.61E-031E-061E-035E-060.009E-039E-100.050.00

6.71E-039E-071E-033E-060.008E-035E-100.050.00

6.81E-036E-071E-032E-060.008E-032E-100.040.00

6.91E-034E-071E-032E-060.007E-031E-100.040.00

79E-043E-079E-041E-060.006E-036E-110.040.00

7.18E-042E-078E-048E-070.006E-033E-110.040.00

7.27E-041E-077E-045E-070.005E-032E-110.030.00

7.37E-048E-087E-043E-070.005E-038E-120.030.00

7.46E-045E-086E-042E-070.005E-034E-120.030.00

7.56E-043E-086E-041E-070.004E-032E-120.030.00

7.65E-042E-085E-041E-070.004E-039E-130.020.00

7.75E-041E-085E-046E-080.003E-034E-130.020.00

7.84E-049E-094E-044E-080.003E-032E-130.020.00

7.94E-046E-094E-043E-080.003E-039E-140.020.00

83E-044E-093E-042E-080.003E-034E-140.020.00

8.13E-042E-093E-041E-080.002E-032E-140.020.00

8.23E-041E-093E-047E-090.002E-038E-150.020.00

8.32E-049E-102E-044E-090.002E-034E-150.010.00

8.42E-045E-102E-043E-090.002E-032E-150.010.00

8.52E-043E-102E-042E-090.002E-037E-160.010.00

8.62E-042E-102E-041E-090.002E-033E-160.010.00

8.72E-041E-102E-046E-100.001E-031E-160.010.00

8.82E-047E-112E-044E-100.001E-035E-170.010.00

8.91E-044E-111E-042E-100.001E-032E-170.010.00

91E-043E-111E-041E-100.001E-039E-180.010.00

9.11E-042E-111E-048E-110.001E-034E-180.010.00

9.21E-049E-121E-045E-110.009E-042E-180.010.00

9.39E-055E-129E-053E-110.009E-046E-190.010.00

9.48E-053E-128E-052E-110.008E-042E-190.010.00

9.57E-052E-127E-051E-110.007E-041E-190.010.00

9.67E-051E-127E-056E-120.007E-044E-200.010.00

9.76E-056E-136E-053E-120.006E-041E-200.010.00

9.86E-053E-136E-052E-120.005E-045E-210.000.00

9.95E-052E-135E-051E-120.005E-042E-210.000.00

105E-051E-135E-056E-130.005E-048E-220.000.00

10.14E-056E-144E-053E-130.004E-043E-220.000.00

10.24E-053E-144E-052E-130.004E-041E-220.000.00

10.33E-052E-143E-051E-130.003E-044E-230.000.00

10.43E-059E-153E-056E-140.003E-041E-230.000.00

10.53E-055E-153E-053E-140.003E-045E-240.000.00

10.62E-053E-152E-052E-140.003E-042E-240.000.00

10.72E-051E-152E-059E-150.002E-046E-250.000.00

10.82E-058E-162E-055E-150.002E-042E-250.000.00

10.92E-054E-162E-053E-150.002E-047E-260.000.00

112E-052E-162E-051E-150.002E-042E-260.000.00

11.12E-051E-162E-058E-160.002E-048E-270.000.00

11.21E-051E-161E-054E-160.002E-043E-270.000.00

11.31E-050E+001E-052E-160.001E-048E-280.000.00

11.41E-050E+001E-051E-160.001E-043E-280.000.00

11.51E-050E+001E-056E-170.001E-049E-290.000.00

11.69E-060E+009E-063E-170.001E-043E-290.000.00

11.78E-060E+008E-061E-170.001E-049E-300.000.00

11.88E-060E+008E-067E-180.009E-053E-300.000.00

11.97E-060E+007E-064E-180.008E-058E-310.000.00

126E-060E+006E-062E-180.007E-053E-310.000.00

12.16E-060E+006E-069E-190.007E-058E-320.000.00

12.25E-060E+005E-065E-190.006E-052E-320.000.00

12.35E-060E+005E-062E-190.006E-057E-330.000.00

12.44E-060E+004E-061E-190.005E-052E-330.000.00

12.54E-060E+004E-065E-200.005E-056E-340.000.00

12.63E-060E+003E-063E-200.004E-052E-340.000.00

12.73E-060E+003E-061E-200.004E-055E-350.000.00

12.83E-060E+003E-066E-210.004E-051E-350.000.00

12.92E-060E+002E-063E-210.003E-054E-360.000.00

132E-060E+002E-061E-210.003E-051E-360.000.00

13.12E-060E+002E-066E-220.003E-053E-370.000.00

13.22E-060E+002E-063E-220.002E-058E-380.000.00

13.32E-060E+002E-061E-220.002E-052E-380.000.00

13.42E-060E+002E-066E-230.002E-055E-390.000.00

13.51E-060E+001E-063E-230.002E-051E-390.000.00

13.61E-060E+001E-061E-230.002E-054E-400.000.00

13.71E-060E+001E-066E-240.002E-051E-400.000.00

13.81E-060E+001E-063E-240.001E-052E-410.000.00

13.99E-070E+009E-071E-240.001E-056E-420.000.00

148E-070E+008E-075E-250.001E-052E-420.000.00

14.18E-070E+008E-072E-250.001E-054E-430.000.00

14.27E-070E+007E-071E-250.001E-059E-440.000.00

14.36E-070E+006E-074E-260.009E-062E-440.000.00

14.46E-070E+006E-072E-260.008E-065E-450.000.00

14.55E-070E+005E-078E-270.007E-061E-450.000.00

14.65E-070E+005E-073E-270.007E-063E-460.000.00

14.74E-070E+004E-071E-270.006E-067E-470.000.00

14.84E-070E+004E-076E-280.006E-062E-470.000.00

14.93E-070E+003E-073E-280.005E-064E-480.000.00

153E-070E+003E-071E-280.005E-068E-490.000.00

15.13E-070E+003E-074E-290.004E-062E-490.000.00

15.23E-070E+003E-072E-290.004E-064E-500.000.00

15.32E-070E+002E-078E-300.003E-069E-510.000.00

15.42E-070E+002E-073E-300.003E-062E-510.000.00

15.52E-070E+002E-071E-300.003E-064E-520.000.00

15.62E-070E+002E-075E-310.003E-069E-530.000.00

15.72E-070E+002E-072E-310.002E-062E-530.000.00

15.81E-070E+001E-078E-320.002E-064E-540.000.00

15.91E-070E+001E-073E-320.002E-068E-550.000.00

161E-070E+001E-071E-320.002E-062E-550.000.00

16.11E-070E+001E-075E-330.002E-063E-560.000.00

16.29E-080E+009E-082E-330.001E-067E-570.000.00

16.38E-080E+008E-087E-340.001E-061E-570.000.00

16.48E-080E+008E-083E-340.001E-063E-580.000.00

16.57E-080E+007E-081E-340.001E-065E-590.000.00

16.66E-080E+006E-084E-350.001E-061E-590.000.00

16.76E-080E+006E-082E-350.009E-072E-600.000.00

16.85E-080E+005E-086E-360.008E-073E-610.000.00

16.95E-080E+005E-082E-360.008E-076E-620.000.00

174E-080E+004E-088E-370.007E-071E-620.000.00

17.14E-080E+004E-083E-370.006E-072E-630.000.00

17.23E-080E+003E-081E-370.006E-074E-640.000.00

17.33E-080E+003E-084E-380.005E-077E-650.000.00

17.43E-080E+003E-081E-380.005E-071E-650.000.00

17.53E-080E+003E-085E-390.004E-072E-660.000.00

17.62E-080E+002E-082E-390.004E-074E-670.000.00

17.72E-080E+002E-086E-400.004E-077E-680.000.00

17.82E-080E+002E-082E-400.003E-071E-680.000.00

17.92E-080E+002E-088E-410.003E-072E-690.000.00

182E-080E+002E-083E-410.003E-073E-700.000.00

18.11E-080E+001E-089E-420.002E-075E-710.000.00

18.21E-080E+001E-083E-420.002E-079E-720.000.00

18.31E-080E+001E-081E-420.002E-071E-720.000.00

18.41E-080E+001E-084E-430.002E-072E-730.000.00

18.59E-090E+009E-091E-430.002E-074E-740.000.00

18.68E-090E+008E-094E-440.002E-076E-750.000.00

18.78E-090E+008E-091E-440.001E-079E-760.000.00

18.87E-090E+007E-095E-450.001E-071E-760.000.00

18.96E-090E+006E-091E-450.001E-072E-770.000.00

196E-090E+006E-095E-460.001E-073E-780.000.00

19.15E-090E+005E-092E-460.001E-075E-790.000.00

19.25E-090E+005E-095E-470.009E-087E-800.000.00

19.34E-090E+004E-092E-470.008E-081E-800.000.00

19.44E-090E+004E-095E-480.007E-081E-810.000.00

19.53E-090E+003E-092E-480.007E-082E-820.000.00

19.63E-090E+003E-095E-490.006E-083E-830.000.00

19.73E-090E+003E-092E-490.005E-084E-840.000.00

19.83E-090E+003E-095E-500.005E-086E-850.000.00

19.92E-090E+002E-092E-500.005E-088E-860.000.00

202E-090E+002E-095E-510.004E-081E-860.000.00

20.12E-090E+002E-092E-510.004E-081E-870.000.00

20.22E-090E+002E-095E-520.003E-082E-880.000.00

20.32E-090E+002E-091E-520.003E-083E-890.000.00

20.41E-090E+001E-094E-530.003E-083E-900.000.00

20.51E-090E+001E-091E-530.003E-085E-910.000.00

20.61E-090E+001E-094E-540.002E-086E-920.000.00

20.71E-090E+001E-091E-540.002E-087E-930.000.00

20.89E-100E+009E-103E-550.002E-089E-940.000.00

20.98E-100E+008E-109E-560.002E-081E-940.000.00

218E-100E+008E-103E-560.002E-081E-950.000.00

21.17E-100E+007E-108E-570.001E-082E-960.000.00

21.26E-100E+006E-102E-570.001E-082E-970.000.00

21.36E-100E+006E-106E-580.001E-083E-980.000.00

21.45E-100E+005E-102E-580.001E-083E-990.000.00

21.55E-100E+005E-105E-590.001E-084E-1000.000.00

21.64E-100E+004E-101E-590.009E-094E-1010.000.00

21.74E-100E+004E-104E-600.008E-095E-1020.000.00

21.83E-100E+003E-101E-600.007E-096E-1030.000.00

21.93E-100E+003E-103E-610.007E-096E-1040.000.00

223E-100E+003E-108E-620.006E-097E-1050.000.00

22.13E-100E+003E-102E-620.006E-098E-1060.000.00

22.22E-100E+002E-106E-630.005E-098E-1070.000.00

22.32E-100E+002E-102E-630.005E-099E-1080.000.00

22.42E-100E+002E-104E-640.004E-091E-1080.000.00

22.52E-100E+002E-101E-640.004E-091E-1090.000.00

22.62E-100E+002E-103E-650.003E-091E-1100.000.00

22.71E-100E+001E-108E-660.003E-091E-1110.000.00

22.81E-100E+001E-102E-660.003E-091E-1120.000.00

22.91E-100E+001E-105E-670.003E-091E-1130.000.00

231E-100E+001E-101E-670.002E-091E-1140.000.00

23.19E-110E+009E-113E-680.002E-091E-1150.000.00

23.28E-110E+008E-119E-690.002E-091E-1160.000.00

23.38E-110E+008E-112E-690.002E-091E-1170.000.00

23.47E-110E+007E-115E-700.002E-091E-1180.000.00

23.56E-110E+006E-111E-700.001E-091E-1190.000.00

23.66E-110E+006E-113E-710.001E-091E-1200.000.00

23.75E-110E+005E-118E-720.001E-091E-1210.000.00

23.85E-110E+005E-112E-720.001E-099E-1230.000.00

23.94E-110E+004E-115E-730.001E-099E-1240.000.00

244E-110E+004E-111E-730.009E-108E-1250.000.00

24.13E-110E+003E-113E-740.008E-107E-1260.000.00

ExtremeNorm

ExtremeVal cum

Norm (.58,1.3) cum

BiGaPo

ExtremeVal(L=1,u=0)

Normal(m=.58, s=1.3)

XNormal (m=20, s=4.47)Poisson (m=20)Binomial (N=2020, p=.01)204.47

04.0E-062.1E-091.5E-09meansd

11.1E-054.1E-083.1E-08

22.7E-054.1E-073.2E-070.012020.20

36.5E-052.7E-062.2E-06pN=s2/pq

41.5E-041.4E-051.1E-05

53.2E-045.5E-054.5E-05

66.6E-041.8E-041.5E-04

71.3E-035.2E-044.4E-04

82.4E-031.3E-031.1E-03

94.3E-032.9E-032.5E-03

107.3E-035.8E-035.1E-03

111.2E-021.1E-029.5E-03

121.8E-021.8E-021.6E-02

132.6E-022.7E-022.5E-02

143.6E-023.9E-023.6E-02

154.8E-025.2E-024.9E-02

166.0E-026.5E-026.2E-02

177.1E-027.6E-027.4E-02

188.1E-028.4E-028.3E-02

198.7E-028.9E-028.8E-02

208.9E-028.9E-028.9E-02

218.7E-028.5E-028.6E-02

228.1E-027.7E-027.9E-02

237.1E-026.7E-026.9E-02

246.0E-025.6E-025.8E-02

254.8E-024.5E-024.7E-02

263.6E-023.4E-023.6E-02

272.6E-022.5E-022.7E-02

281.8E-021.8E-021.9E-02

291.2E-021.3E-021.4E-02

307.3E-038.3E-039.1E-03

314.3E-035.4E-035.9E-03

322.4E-033.4E-033.7E-03

331.3E-032.0E-032.2E-03

346.6E-041.2E-031.3E-03

353.2E-046.9E-047.6E-04

361.5E-043.8E-044.2E-04

376.5E-052.1E-042.3E-04

382.7E-051.1E-041.2E-04

391.1E-055.6E-056.2E-05

404.0E-062.8E-053.1E-05

&A

Page &P

Normal (m=20, s=4.47)

Poisson (m=20)

Binomial (N=2020, p=.01)

p and q 0 p q 1 q = 1 p two types of object or event.Factorials 0! = 1 n! = n(n-1)!Combinatorics (C= # subsets of size X are possible from a set of total size of n) n!X!(n-X)! = C(n,X) B(X) = C(n, X) pX qn-X m = np s2 = npq (p+q)n = B(X) = 1Binomial frequency distribution as a function of X {int 0 ... n}B(X: 350, n: 700, p: 0.1) = 1.5314810-157 =PDF[ BinomialDistribution[700, 0.1], 350] Mathematica ~= 0.00 =BINOMDIST(350,700,0.1,0) Excel

Quantitative definition of life (& utility of such)"papers incubating where we do calculate the statistical complexity of various real-world processes"http://cscs.umich.edu/~crshalizi/notebooks/complexity-measures.html James P. Crutchfield and Karl Young, "Inferring Statistical Complexity," Physical Review Letters 63 (1989) 105--109

Bits & complexityHow many bits to represent your genome (from your mother)?How many additional bits for paternal DNA?How many bits to define the ribosome structure below?

3 Exponential technologies(synergistic)Shendure J, Mitra R, Varma C, Church GM, 2004 Nature Reviews of Genetics. Carlson 2003 ; Kurzweil 2002; Moore 1965ureaE.coliB12tRNAoperonstelegraph Computation &Communication (bits/sec)Synthesis (daltons)Analysis(bp/$)tRNA

Chart3

601830118301830

18401184018401840

18501850185018501850

18601860186018601860

18701870187018701870

18801880188018801880

18901890189018901890

19001900190019001900

19101910191019101910

19201920192019201920

19301930193019301930

19401000194019401940

1950100000195019501950

19601000000196019601960

1965196519650.0011965

2508010000000197219721972

13551973197319731973

198010000000019800.041980

19901000000000019900.41990

1993.41666666671993.41666666671993.41666666671993.41666666671993.4166666667

1993.91666666671993.91666666671993.91666666671993.91666666671993.9166666667

1994.41666666671994.41666666671994.41666666671994.41666666671994.4166666667

1994.91666666671994.91666666671994.91666666671994.91666666671994.9166666667

1995.41666666671995.41666666671995.416666666711995.4166666667

19961996199619961996

1996.41666666671996.41666666671996.41666666671996.41666666671996.4166666667

19971997199719971997

19981998199821998

19991999199951999

2000.2100000000000002000.22000.22000.2

200120012001102001

49500002002200220022002

20032003200320031

2003.52003.52003.52003.550

10560000200420041000360000

330000002005200520052005

33000000002006200620062006

20092009200920092009

Daltons synth

Bits/sec

#REF!

Seq bp/$

Polony bp/min

IPS,Seq,Syn

YearDaltons synthBits/secSeq bp/$Polony bp/minCommentsSyn bp/$

18306E+1urea-Wohler 1828

18401E+0telegraph

1850

1860

1870

1880

1890

1900

1910

1920

1930

19401E+3

19501E+5

19601E+6

19650.001tRNA-Holley

19723E+41E+7tRNA-Khorana

19731E+3B12-Woodward

19801E+80.04

19901E+100.4

1993.42

1993.92

1994.42

1994.92

1995.421

1996.00

1996.42

1997.00

19982

19995

2000.21E+13

200110

20025E+6polio

20031

2003.550

20041E+71000360000operon HMS

20053E+7operon Kosan

20063E+9E.coli

2009

IPS,Seq,Syn

1

Daltons synth

Bits/sec

#REF!

Seq bp/$

Polony bp/min

bp&IPS

YearIPS/$bp/$Polony bp/min

19201E-6

19301E-6

19401E-5

19501E-3

19601E-2

19701E-10.00176 bases/ $100K 2004$ personnel and supplieshttp://www.mit.edu/people/mkgray/net/web-growth-summary.html

19801E+10.044362 bases/ $100K 2004$ personnel and supplies

19901E+30.4

1993.421.00E+04

1993.925000-fold in 42 months

1994.42

1994.9240963.5

1995.421327681.25

1996.00

1996.42

1997.00

19983.00E+0527X*3Gbp/$27M or 2Gbp/$3M Affy

19997.00E+055

2000.21E+6

20011.00E+0610

20031

2003.550

20041.00E+091000360000

2007

2009

bp&IPS

130

623

2738

10022

23500

100000

230000

650000

IPS/$

bp/$

#Web sites

Polony bp/min

Memory

bits totalWatts/Hznm/bit

human1.00E+09

Global disks

Google

DNA

Whitfeld, P. R. A method for the determination of nucleotide sequence in polyribonucleotides. Biochem J 58, 390-6 (1954).

Holley, R. W. et al. Structure of a Ribonucleic Acid. Science 147, 1462-5 (1965).

IPS

Yearlog(IPS/$K)log(bits/sec transmit)IPS/$Kbits/sec transmitYear

184001E+01840

18501850

18601860

18701870

18801880

18901890

1900-51E-51900

1910-41E-41910

1920-31E-31920

1930-31E-31930

1940-231E-21E+31940

1950051E+01E+51950

1960161E+11E+61960

1970271E+21E+71970

1980481E+41E+81980

19906101E+61E+101990

20009131E+91E+132000

bp

Yearbp/$bp/$*$/bp$/humgenome

19700.0010.00110003E+12100bp/yr

19800.040.04258E+104000/yr/$100K

19900.40.42.58E+940000/yr

19951113E+91.7M/10yr

1998220.52E+9

1999550.26E+8

200110100.13E+8$300M/draft

20041000200.0013E+6$3M/reseq

20071.00E+054.00E+010.000013E+4extrapolate

20091.00E+061.20E+020.0000013E+3extrapolate

MBD0017CEA5.xls

Chart10

0.001

0.04

0.4

1

2

5

10

1000

100000

1000000

bp/$

Chart1

0.000001192019201920

0.000001193019301930

0.00001194019401940

0.001195019501950

0.01196019601960

0.10.00119701970

100.0419801980

10000.419901990

100001993.41666666671301993.4166666667

1993.91666666671993.91666666676231993.9166666667

1994.41666666671994.416666666727381994.4166666667

1994.91666666671994.9166666667100221994.9166666667

1995.41666666671235001995.4166666667

199619961000001996

1996.41666666671996.41666666672300001996.4166666667

199719976500001997

300000219981998

700000519991999

10000002000.22000.22000.2

10000001020012001

2003200320031

2003.52003.52003.550

200410002004360000

2007200720072007

2009200920092009

IPS/$

bp/$

#web sites

Polony bp/min

bp&IPS

YearIPS/$bp/$#web sitesPolony bp/min

19201E-6

19301E-6

19401E-5

19501E-3

19601E-2

19701E-10.00176 bases/ $100K 2004$ personnel and supplieshttp://www.mit.edu/people/mkgray/net/web-growth-summary.html

19801E+10.044362 bases/ $100K 2004$ personnel and supplies

19901E+30.4

1993.421.00E+04130

1993.926235000-fold in 42 months

1994.422,738

1994.9210,02240963.5

1995.42123,500327681.25

1996.00100,000

1996.42230,000

1997.00650,000

19983.00E+0527X*3Gbp/$27M or 2Gbp/$3M Affy

19997.00E+055

2000.21E+6

20011.00E+0610

20031

2003.550

20041000360000

2007

2009

bp&IPS

IPS/$

bp/$

#web sites

Polony bp/min

bp

Yearbp/$bp/$*$/bp$/humgenome

19700.0010.00110003E+12100bp/yr

19800.040.04258E+104000/yr/$100K

19900.40.42.58E+940000/yr

19951113E+91.7M/10yr

1998220.52E+9

1999550.26E+8

200110100.13E+8$300M/draft

20041000200.0013E+6$3M/reseq

20071.00E+054.00E+010.000013E+4extrapolate

20091.00E+061.20E+020.0000013E+3extrapolate

bp

bp/$

IPS

bp/$

bp/$*

Yearlog(IPS/$K)log(bits/sec transmit)IPS/$Kbits/sec transmit

184001E+0

1850

1860

1870

1880

1890

1900-51E-5

1910-41E-4

1920-31E-3

1930-31E-3

1940-231E-21E+3

1950051E+01E+5

1960161E+11E+6

1970271E+21E+7

1980481E+41E+8

19906101E+61E+10

20009131E+91E+13

18400

18501850

18601860

18701870

18801880

18901890

-51900

-41910

-31920

-31930

-23

05

16

27

48

610

913

log(IPS/$K)

log(bits/sec transmit)

Quadratic

Quadratic

R2 = 0.985

R2 = 0.992

MBD0017D576.xls

Chart13

0.0010.001

0.040.04

0.40.4

11

22

55

1010

100020

10000040

1000000120

bp/$

bp/$*

Chart1

0.000001192019201920

0.000001193019301930

0.00001194019401940

0.001195019501950

0.01196019601960

0.10.00119701970

100.0419801980

10000.419901990

100001993.41666666671301993.4166666667

1993.91666666671993.91666666676231993.9166666667

1994.41666666671994.416666666727381994.4166666667

1994.91666666671994.9166666667100221994.9166666667

1995.41666666671235001995.4166666667

199619961000001996

1996.41666666671996.41666666672300001996.4166666667

199719976500001997

300000219981998

700000519991999

10000002000.22000.22000.2

10000001020012001

2003200320031

2003.52003.52003.550

200410002004360000

2007200720072007

2009200920092009

IPS/$

bp/$

#web sites

Polony bp/min

bp&IPS

YearIPS/$bp/$#web sitesPolony bp/min

19201E-6

19301E-6

19401E-5

19501E-3

19601E-2

19701E-10.00176 bases/ $100K 2004$ personnel and supplieshttp://www.mit.edu/people/mkgray/net/web-growth-summary.html

19801E+10.044362 bases/ $100K 2004$ personnel and supplies

19901E+30.4

1993.421.00E+04130

1993.926235000-fold in 42 months

1994.422,738

1994.9210,02240963.5

1995.42123,500327681.25

1996.00100,000

1996.42230,000

1997.00650,000

19983.00E+0527X*3Gbp/$27M or 2Gbp/$3M Affy

19997.00E+055

2000.21E+6

20011.00E+0610

20031

2003.550

20041000360000

2007

2009

bp&IPS

IPS/$

bp/$

#web sites

Polony bp/min

bp

Yearbp/$bp/$*$/bp$/humgenome

19700.0010.00110003E+12100bp/yr

19800.040.04258E+104000/yr/$100K

19900.40.42.58E+940000/yr

19951113E+91.7M/10yr

1998220.52E+9

1999550.26E+8

200110100.13E+8$300M/draft

20041000200.0013E+6$3M/reseq

20071.00E+054.00E+010.000013E+4extrapolate

20091.00E+061.20E+020.0000013E+3extrapolate

bp

bp/$

IPS

bp/$

bp/$*

Yearlog(IPS/$K)log(bits/sec transmit)IPS/$Kbits/sec transmit

184001E+0

1850

1860

1870

1880

1890

1900-51E-5

1910-41E-4

1920-31E-3

1930-31E-3

1940-231E-21E+3

1950051E+01E+5

1960161E+11E+6

1970271E+21E+7

1980481E+41E+8

19906101E+61E+10

20009131E+91E+13

18400

18501850

18601860

18701870

18801880

18901890

-51900

-41910

-31920

-31930

-23

05

16

27

48

610

913

log(IPS/$K)

log(bits/sec transmit)

Quadratic

Quadratic

R2 = 0.985

R2 = 0.992

MBD0017B2CD.xls

Chart7

18400

18501850

18601860

18701870

18801880

18901890

-51900

-41910

-31920

-31930

-23

05

16

27

48

610

913

log(IPS/$K)

log(bits/sec transmit)

Quadratic

Quadratic

R2 = 0.985

R2 = 0.992

Chart1

0.000001192019201920

0.000001193019301930

0.00001194019401940

0.001195019501950

0.01196019601960

0.10.00119701970

100.0419801980

10000.419901990

100001993.41666666671301993.4166666667

1993.91666666671993.91666666676231993.9166666667

1994.41666666671994.416666666727381994.4166666667

1994.91666666671994.9166666667100221994.9166666667

1995.41666666671235001995.4166666667

199619961000001996

1996.41666666671996.41666666672300001996.4166666667

199719976500001997

300000219981998

700000519991999

10000002000.22000.22000.2

10000001020012001

2003200320031

2003.52003.52003.550

200410002004360000

2007200720072007

2009200920092009

IPS/$

bp/$

#web sites

Polony bp/min

bp&IPS

YearIPS/$bp/$#web sitesPolony bp/min

19201E-6

19301E-6

19401E-5

19501E-3

19601E-2

19701E-10.00176 bases/ $100K 2004$ personnel and supplieshttp://www.mit.edu/people/mkgray/net/web-growth-summary.html

19801E+10.044362 bases/ $100K 2004$ personnel and supplies

19901E+30.4

1993.421.00E+04130

1993.926235000-fold in 42 months

1994.422,738

1994.9210,02240963.5

1995.42123,500327681.25

1996.00100,000

1996.42230,000

1997.00650,000

19983.00E+0527X*3Gbp/$27M or 2Gbp/$3M Affy

19997.00E+055

2000.21E+6

20011.00E+0610

20031

2003.550

20041000360000

2007

2009

bp&IPS

0000

0000

0000

0000

0000

0000

0000

0000

0000

0000

0000

0000

0000

0000

0000

0000

0000

0000

0000

0000

0000

0000

0000

0000

0000

IPS/$

bp/$

#web sites

Polony bp/min

bp

Yearbp/$bp/$*$/bp$/humgenome

19700.0010.00110003E+12100bp/yr

19800.040.04258E+104000/yr/$100K

19900.40.42.58E+940000/yr

19951113E+91.7M/10yr

1998220.52E+9

1999550.26E+8

200110100.13E+8$300M/draft

20041000200.0013E+6$3M/reseq

20071.00E+054.00E+010.000013E+4extrapolate

20091.00E+061.20E+020.0000013E+3extrapolate

bp

0

0

0

0

0

0

0

0

0

0

bp/$

IPS

00

00

00

00

00

00

00

00

00

00

bp/$

bp/$*

Yearlog(IPS/$K)log(bits/sec transmit)IPS/$Kbits/sec transmit

184001E+0

1850

1860

1870

1880

1890

1900-51E-5

1910-41E-4

1920-31E-3

1930-31E-3

1940-231E-21E+3

1950051E+01E+5

1960161E+11E+6

1970271E+21E+7

1980481E+41E+8

19906101E+61E+10

20009131E+91E+13

18400

18501850

18601860

18701870

18801880

18901890

-51900

-41910

-31920

-31930

-23

05

16

27

48

610

913

log(IPS/$K)

log(bits/sec transmit)

Quadratic

Quadratic

R2 = 0.985

R2 = 0.992

Vertebratebrain size evolutionOngoing Adaptive Evolution of ASPM, a Brain Size Determinant in Homo sapiens Science 2005 Bond et al 2002 ASPM is a major determinant of cerebral cortical size. Nat Genet. 32(2):316-20.Jerison, Paleoneurology & the Evolution of Mind, Scientific Amer. 1976Human-chimp 1.2%Human-human 0.1%Genome: 2x 3Gbp

Brain complexityThe retina's 10 million detections per second [.02 g] ... extrapolation ... 1014 instructions per second to emulate the 1,500 gram human brain. ... thirty more years .. (Morovec99)figEdge & motion detection (examples)Discovering the Capacity of Human Memory Wang 2003 N=1011 neurons, m=1000 connections: n!/[m!(n-m)!] = 10^8432 bits. How Many Bytes in Human Memory? Merkle 1988 Landauer 2 bits/sec (

Inheritance is not just DNA

Inheritance is not just DNAPastLocomotion50Ocean depth75mVisible l.4-.7 mTemperature275-370Memory years20 Memory bits109Cell therapy 0http://www.techworld.com/opsys/features/index.cfm?fuseaction=displayfeatures&featureid=467&page=1&pagepos=5http://www.merkle.com/humanMemory.html Current26720 km/h10,912 mpm-Mm3-1900oK5000 1017most tissues

Class outline(1) Topic priorities for homework since last class(2) Quantitative exercises: psycho-statistics, combinatorials, random/compression, exponential/logistic, bits, association & multi-hypotheses(3) Project level presentation & discussion(4) Sub-project reports & discussion: Personalized Medicine & Energy Metabolism (5) Discuss communication/presentation tools(6) Topic priorities for homework for next class

Common Disease Common Variant Theory. How common?ApoE allele e4 : Alzheimers dementia, & hypercholesterolemia20% in humans, >97% in chimps

HbS 17% & G6PD 40% in a Saudi sample

CCR5D32 : resistance to HIV 9% in caucasians

THE FUTURE OF HUMAN NATURE http://www.bu.edu/pardee/events/conferences/2003/nature-program.html The Singularity Is Near : When Humans Transcend Biology The Law of Accelerating Returns by Ray Kurzweil An analysis of the history of technology shows that technological change is exponential, contrary to the common-sense "intuitive linear" view. So we won't experience 100 years of progress in the 21st century -- it will be more like 20,000 years of progress (at today's rate). .. ultra-high levels of intelligence that expand outward in the universe at the speed of light. http://www.kurzweilai.net/articles/art0134.html?printable=1 Bill Joy Wired 8.04 | Apr 2000 Our most powerful 21st-century technologies - robotics, genetic engineering, and nanotech - are threatening to make humans an endangered species.

Personalized Medicine/Genetics Haplotype Diversity across 100 Candidate Genes for Inflammation, Lipid Metabolism, and Blood Pressure Regulation in Two Populations. Crawford, et al.

A common haplotype in the complement regulatory gene factor H (HF1/CFH) predisposes individuals to age-related macular degeneration Hageman, et al. 2005

Common Disease Common Variant Theory. How common?ApoE allele e4 : Alzheimers dementia, & hypercholesterolemia20% in humans, >97% in chimps

HbS 17% & G6PD 40% in a Saudi sample

CCR5D32 : resistance to HIV 9% in caucasians

SNPs & Covariance in proteins e4 20%ApoEe3 80%Ancestral = Arg 112 Thr 61

Energy & CO2 SequestrationHumans consume 2kW per person = 1010 kW.Sunlight hits the earth at 40,000 times that rate (70% ocean).

CO2/yr: Fossil fuel use releases 5 Gton.Ocean & terrestrial productivity = ~100 Gton each.

Autotrophs: 1026 Prochlorococcus cells globally (108 per liter)

Sequestration v. respiration v. use: heterotrophs (Pelagibacter), phages, predators (Maxillopoda, Malacostraca, herring)http://www.gsfc.nasa.gov/gsfc/service/gallery/fact_sheets/earthsci/terra/earths_energy_balance.htmhttp://clear.eawag.ch/models/optionenE.html http://en.wikipedia.org/wiki/CopepodMorris et al. Nature 2002 Dec 19-26;420(6917):806-10. http://hosting.uaa.alaska.edu/mhines/biol468/pages/carbon.htmlhttp://www.aeiveos.com/~bradbury/Papers/PhotosyntheticEfficiency.html0.1 m0.1 mm6 cmLab:100X

Class outline(1) Topic priorities for homework since last class(2) Quantitative exercise(3) Project level presentation & discussion(4) Sub-project reports & discussion(5) Discuss communication/presentation tools(6) Topic priorities, homework for next class

.

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