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  1. Daniels and Nemenman, 2015a
  2. De Ronde et al., 2009
  3. Decoding Spike Trains
  4. Deep Lab Cut: markerless movement analysis made simple
  5. Diagnostics using microarray data
  6. Dresigmeyer et al., 2008
  7. E. coli chemoreceptor: mesoscopic model
  8. Edwards et al., 2007
  9. Ellison et al., 2016
  10. Entropy Estimation
  11. Entropy estimation methods
  12. Establishing causality
  13. FAQ
  14. First q-bio Conference: Employment board
  15. First q-bio Conference: Participants
  16. First q-bio Conference: Program
  17. First q-bio Conference: Program Details
  18. First q-bio Summer School: Classrooms
  19. First q-bio Summer School: Gene Regulation
  20. First q-bio Summer School: Other Topics in Biological Modeling
  21. First q-bio Summer School: Participants
  22. First q-bio Summer School: Program
  23. First q-bio Summer School: School Hotel
  24. First q-bio Summer School: Signal Transduction Mechanisms
  25. First q-bio Summer School: Stochasticity in Biochemistry and Systems Biology
  26. Gintautas et al., 2011
  27. Group Picture 2012
  28. Group Picture 2013
  29. Group Picture 2014
  30. Group Picture 2016
  31. Group seminar / Journal club
  32. Hlavacek et al., 2015
  33. Holmes et al., 2017
  34. Holy and Nemenman, 2002
  35. INemenman
  36. Ilya Nemenman
  37. Individuality in Movement and Locomotion: From equations to interventions
  38. Individuality in risk-tolerance and learning effects in non-steady locomotion of guinea fowl
  39. Information Bottleneck Method
  40. Information processing in biological systems
  41. Installing Octave on your PC and Mac
  42. Issues
  43. Kominis and Nemenman, 1997
  44. Lab Members
  45. Learning, adaptation, and adaptive behaviors
  46. Leung et al., 2016
  47. Levchenko and Nemenman, 2014
  48. Locomotion and Movement Workshop 2020: Posters
  49. Margolin et al., 2004b
  50. Margolin et al., 2006a
  51. Margolin et al., 2006b
  52. Margolin et al., 2010
  53. Merchan and Nemenman, 2015
  54. Michaelis-Menten reaction: pump current and other stochastic effects
  55. Minkevich and Nemenman, 1995a
  56. Minkevich and Nemenman, 1995b
  57. Mugler et al., 2008
  58. Mugler et al., 2009
  59. Mugler et al., 2015
  60. Munsky et al., 2009
  61. Naud et al., 1999
  62. Nemenman, 2004
  63. Nemenman, 2005
  64. Nemenman, 2011b
  65. Nemenman, 2012
  66. Nemenman, 2012a
  67. Nemenman, 2015
  68. Nemenman-filtering
  69. Nemenman and Bialek, 2002
  70. Nemenman and Silbergleit, 1999
  71. Nemenman and Singh, 2015
  72. Nemenman and Wiggins
  73. Nemenman et al.
  74. Nemenman et al., 2002
  75. Nemenman et al., 2004
  76. Nemenman et al., 2007a
  77. Nemenman et al., 2008
  78. Nemenman et al., 2008a
  79. Nemenman et al., 2009
  80. Nemenman et al., 2010
  81. Nemenman et al., 2011
  82. Nemenman et al., 2012
  83. Nemenman et al., 2013
  84. Nemenman et al., 2014
  85. Nemenman et al., 2015
  86. News
  87. Open positions
  88. Otwinowski and Nemenman, 2013
  89. Otwinowski et al., 2011
  90. P53 regulation
  91. Personal Pages
  92. Ph. D. Thesis
  93. Physics 190, 2015: Discussion Leaders
  94. Physics 190, 2015: Freshman Seminar: Where do laws of nature come from?
  95. Physics 190, 2015: Syllabus
  96. Physics 212, 2016: Computational Modeling For Scientists And Engineers
  97. Physics 212, 2016: Syllabus
  98. Physics 212, 2017: Computational Modeling For Scientists And Engineers
  99. Physics 212, 2017: Lab 10
  100. Physics 212, 2017: Lab 12
  101. Physics 212, 2017: Lab 4
  102. Physics 212, 2017: Lab 5: Starting with Project 2
  103. Physics 212, 2017: Lab 7
  104. Physics 212, 2017: Lecture 10
  105. Physics 212, 2017: Lecture 11: Good coding practices
  106. Physics 212, 2017: Lecture 12: More Python: Scopes and all that
  107. Physics 212, 2017: Lecture 13
  108. Physics 212, 2017: Lecture 14
  109. Physics 212, 2017: Lecture 15
  110. Physics 212, 2017: Lecture 18: Introduction to randomness. How are pseudo-random numbers generated?
  111. Physics 212, 2017: Lecture 1 - Introduction
  112. Physics 212, 2017: Lecture 2
  113. Physics 212, 2017: Lecture 23
  114. Physics 212, 2017: Lecture 24
  115. Physics 212, 2017: Lecture 25
  116. Physics 212, 2017: Lecture 3 - The Modeling Process
  117. Physics 212, 2017: Lecture 7
  118. Physics 212, 2017: Lecture 8
  119. Physics 212, 2017: Lecture 9: Errors
  120. Physics 212, 2017: Lectures 5, 6
  121. Physics 212, 2017: Syllabus
  122. Physics 212, 2018: Computational Modeling For Scientists And Engineers
  123. Physics 212, 2018: Lab 11
  124. Physics 212, 2018: Lab 12
  125. Physics 212, 2018: Lecture 1
  126. Physics 212, 2018: Lecture 10
  127. Physics 212, 2018: Lecture 11
  128. Physics 212, 2018: Lecture 12
  129. Physics 212, 2018: Lecture 13
  130. Physics 212, 2018: Lecture 14
  131. Physics 212, 2018: Lecture 15
  132. Physics 212, 2018: Lecture 17
  133. Physics 212, 2018: Lecture 18
  134. Physics 212, 2018: Lecture 19
  135. Physics 212, 2018: Lecture 2
  136. Physics 212, 2018: Lecture 21
  137. Physics 212, 2018: Lecture 22
  138. Physics 212, 2018: Lecture 23
  139. Physics 212, 2018: Lecture 24
  140. Physics 212, 2018: Lecture 25
  141. Physics 212, 2018: Lecture 3
  142. Physics 212, 2018: Lectures 4
  143. Physics 212, 2018: Lectures 6
  144. Physics 212, 2018: Lectures 7
  145. Physics 212, 2018: Lectures 8
  146. Physics 212, 2018: Lectures 9
  147. Physics 212, 2018: Syllabus
  148. Physics 212, 2019: Computational Modeling For Scientists And Engineers
  149. Physics 212, 2019: Lecture 1
  150. Physics 212, 2019: Lecture 10
  151. Physics 212, 2019: Lecture 11
  152. Physics 212, 2019: Lecture 12
  153. Physics 212, 2019: Lecture 13
  154. Physics 212, 2019: Lecture 14
  155. Physics 212, 2019: Lecture 15
  156. Physics 212, 2019: Lecture 16
  157. Physics 212, 2019: Lecture 17
  158. Physics 212, 2019: Lecture 18
  159. Physics 212, 2019: Lecture 19
  160. Physics 212, 2019: Lecture 2
  161. Physics 212, 2019: Lecture 20
  162. Physics 212, 2019: Lecture 22
  163. Physics 212, 2019: Lecture 3
  164. Physics 212, 2019: Lecture 4
  165. Physics 212, 2019: Lecture 5
  166. Physics 212, 2019: Lecture 6
  167. Physics 212, 2019: Lecture 7
  168. Physics 212, 2019: Lecture 8
  169. Physics 212, 2019: Lecture 9
  170. Physics 212, 2019: Syllabus
  171. Physics 212, 2020: Computational Modeling For Scientists And Engineers
  172. Physics 212, 2020: Syllabus
  173. Physics 380, 2010: Basic Probability Theory
  174. Physics 380, 2010: Coding Theorems
  175. Physics 380, 2010: Fourier Analysis
  176. Physics 380, 2010: Information, Gambling, and Population Biology
  177. Physics 380, 2010: Information Processing in Biology
  178. Physics 380, 2010: Information Theory
  179. Physics 380, 2010: Introduction
  180. Physics 380, 2010: Linear Response Theory
  181. Physics 380, 2010: Random Walks
  182. Physics 380, 2011: Block four: Adaptation
  183. Physics 380, 2011: Block one: Biological information processing is probabilistic
  184. Physics 380, 2011: Block three: Dynamical Information Processing
  185. Physics 380, 2011: Block two: Information theory in biological signaling
  186. Physics 380, 2011: Homework 1
  187. Physics 380, 2011: Homework 10
  188. Physics 380, 2011: Homework 2
  189. Physics 380, 2011: Homework 3
  190. Physics 380, 2011: Homework 4
  191. Physics 380, 2011: Homework 5
  192. Physics 380, 2011: Homework 6
  193. Physics 380, 2011: Homework 7
  194. Physics 380, 2011: Homework 8
  195. Physics 380, 2011: Homework 9
  196. Physics 380, 2011: Information Processing in Biology
  197. Physics 380, 2011: Lecture 1
  198. Physics 380, 2011: Lecture 10
  199. Physics 380, 2011: Lecture 11
  200. Physics 380, 2011: Lecture 12
  201. Physics 380, 2011: Lecture 13
  202. Physics 380, 2011: Lecture 14
  203. Physics 380, 2011: Lecture 15
  204. Physics 380, 2011: Lecture 16
  205. Physics 380, 2011: Lecture 17
  206. Physics 380, 2011: Lecture 18
  207. Physics 380, 2011: Lecture 19
  208. Physics 380, 2011: Lecture 2
  209. Physics 380, 2011: Lecture 21
  210. Physics 380, 2011: Lecture 22
  211. Physics 380, 2011: Lecture 23
  212. Physics 380, 2011: Lecture 24
  213. Physics 380, 2011: Lecture 25
  214. Physics 380, 2011: Lecture 26
  215. Physics 380, 2011: Lecture 27
  216. Physics 380, 2011: Lecture 3
  217. Physics 380, 2011: Lecture 4
  218. Physics 380, 2011: Lecture 5
  219. Physics 380, 2011: Lecture 6
  220. Physics 380, 2011: Lecture 7
  221. Physics 380, 2011: Lecture 8
  222. Physics 380, 2011: Lecture 9
  223. Physics 380, 2012: Homework 11
  224. Physics 380, 2012: Homework 12
  225. Physics 434, 2012: Block one: Biological information processing is probabilistic
  226. Physics 434, 2012: Block three: Dynamical Information Processing
  227. Physics 434, 2012: Block two: Information theory in biological signaling
  228. Physics 434, 2012: Homework 1
  229. Physics 434, 2012: Homework 10
  230. Physics 434, 2012: Homework 2
  231. Physics 434, 2012: Homework 3
  232. Physics 434, 2012: Homework 4
  233. Physics 434, 2012: Homework 5
  234. Physics 434, 2012: Homework 6
  235. Physics 434, 2012: Homework 7
  236. Physics 434, 2012: Homework 8
  237. Physics 434, 2012: Homework 9
  238. Physics 434, 2012: Information Processing in Biology
  239. Physics 434, 2012: Lecture 1
  240. Physics 434, 2012: Lecture 10
  241. Physics 434, 2012: Lecture 14
  242. Physics 434, 2012: Lecture 15
  243. Physics 434, 2012: Lecture 16
  244. Physics 434, 2012: Lecture 17
  245. Physics 434, 2012: Lecture 20
  246. Physics 434, 2012: Lecture 4
  247. Physics 434, 2012: Lecture 5
  248. Physics 434, 2012: Lecture 6
  249. Physics 434, 2012: Lecture 7
  250. Physics 434, 2012: Lectures 10-11
  251. Physics 434, 2012: Lectures 12-13
  252. Physics 434, 2012: Lectures 2-3
  253. Physics 434, 2012: Lectures 8, 9
  254. Physics 434, 2012: Syllabus
  255. Physics 434, 2014: Block one: Biological information processing is probabilistic
  256. Physics 434, 2014: Central limit theorem
  257. Physics 434, 2014: Continuous randomness
  258. Physics 434, 2014: Homework 1
  259. Physics 434, 2014: Homework 2
  260. Physics 434, 2014: Homework 3
  261. Physics 434, 2014: Homework 4
  262. Physics 434, 2014: Homework 5
  263. Physics 434, 2014: Homework 6
  264. Physics 434, 2014: Homework 7
  265. Physics 434, 2014: Homework 8
  266. Physics 434, 2014: Information Processing in Biology
  267. Physics 434, 2014: Introduction
  268. Physics 434, 2014: Luria-Delbruck experiment
  269. Physics 434, 2014: Project 1 -- Multistability and a molecular clock
  270. Physics 434, 2014: Project 2 -- Who controls whom?
  271. Physics 434, 2014: Project 3 -- Noise propagation
  272. Physics 434, 2014: Project 4 -- Luria and Delbruck, take 2
  273. Physics 434, 2014: Projects
  274. Physics 434, 2014: Random walks and diffusion
  275. Physics 434, 2014: Scripts
  276. Physics 434, 2014: Search and first passage times
  277. Physics 434, 2014: Stochastic chemical kinetics
  278. Physics 434, 2014: Syllabus
  279. Physics 434, 2015: Homework 1
  280. Physics 434, 2015: Homework 10
  281. Physics 434, 2015: Homework 2
  282. Physics 434, 2015: Homework 3
  283. Physics 434, 2015: Homework 4
  284. Physics 434, 2015: Homework 5
  285. Physics 434, 2015: Homework 6
  286. Physics 434, 2015: Homework 7
  287. Physics 434, 2015: Homework 8
  288. Physics 434, 2015: Homework 9
  289. Physics 434, 2015: Introduction to Information theory
  290. Physics 434, 2015: Physical Biology
  291. Physics 434, 2015: Project 1, Luria-Delbruck, Revisited
  292. Physics 434, 2015: Project 2 -- Multistability in gene expression
  293. Physics 434, 2015: Project 3 -- Who controls whom?
  294. Physics 434, 2015: Project 4 -- Noise Propagation
  295. Physics 434, 2015: Project 5
  296. Physics 434, 2015: Syllabus
  297. Physics 434, 2016: Discrete randomness
  298. Physics 434, 2016: Homework 1
  299. Physics 434, 2016: Homework 2
  300. Physics 434, 2016: Homework 3
  301. Physics 434, 2016: Homework 4
  302. Physics 434, 2016: Homework 5
  303. Physics 434, 2016: Homework 6
  304. Physics 434, 2016: Homework 7
  305. Physics 434, 2016: Homework 8
  306. Physics 434, 2016: Homework 9
  307. Physics 434, 2016: Law of large numbers
  308. Physics 434, 2016: Physical Biology
  309. Physics 434, 2016: Project 1
  310. Physics 434, 2016: Project 2
  311. Physics 434, 2016: Syllabus
  312. Physics 434, Lecture 1 additional notes
  313. Physics 511A, 2011: Chapter 1, Volume 2. The principle of relativity
  314. Physics 511A, 2012: Chapter 1, Volume 8. Electrostatics of conductors
  315. Physics 511A, 2012: Chapter 2, Volume 2. Relativistic mechanics
  316. Physics 511A, 2012: Chapter 2, Volume 8. Electrostatics of dielectric
  317. Physics 511A, 2012: Chapter 3, Volume 2. Charges in electromagnetic field
  318. Physics 511A, 2012: Chapter 3, Volume 8. Steady current
  319. Physics 511A, 2012: Chapter 4, Volume 2. Electromagnetic field equations
  320. Physics 511A, 2012: Chapter 4, Volume 8. Static magnetic field
  321. Physics 511A, 2012: Chapter 5, Volume 2. Constant electromagnetic fields
  322. Physics 511A, 2012: Chapter 6, Volume 2. Electromagnetic waves
  323. Physics 511A, 2012: Chapter 7, Volume 2. Propagation of light
  324. Physics 511A, 2012: Chapter 8, Volume 2. The field of moving charges
  325. Physics 511A, 2012: Chapter 9, Volume 2. Radiation of electromagnetic waves
  326. Physics 511A, 2012: Graduate Electrodynamics
  327. Physics 511A, 2012: Waves in media
  328. Physics 511A, 2013: Chapter 1, Volume 2. The principle of relativity
  329. Physics 511A, 2013: Chapter 1, Volume 8. Electrostatics of conductors
  330. Physics 511A, 2013: Chapter 2, Volume 2. Relativistic mechanics
  331. Physics 511A, 2013: Chapter 2, Volume 8. Electrostatics of dielectric
  332. Physics 511A, 2013: Chapter 3, Volume 2. Charges in electromagnetic field
  333. Physics 511A, 2013: Chapter 3, Volume 8. Steady current
  334. Physics 511A, 2013: Chapter 4, Volume 2. Electromagnetic field equations
  335. Physics 511A, 2013: Chapter 4, Volume 8. Static magnetic field
  336. Physics 511A, 2013: Chapter 5, Volume 2. Constant electromagnetic fields
  337. Physics 511A, 2013: Chapter 6, Volume 2. Electromagnetic waves
  338. Physics 511A, 2013: Chapter 7, Volume 2. Propagation of light
  339. Physics 511A, 2013: Chapter 8, Volume 2. The field of moving charges
  340. Physics 511A, 2013: Chapter 9, Volume 2. Radiation of electromagnetic waves
  341. Physics 511A, 2013: Graduate Electrodynamics
  342. Physics 511A, 2013: Waves in media
  343. Physics 511A, 2014: Chapter 1, Volume 2. The principle of relativity
  344. Physics 511A, 2014: Chapter 1, Volume 8. Electrostatics of conductors
  345. Physics 511A, 2014: Chapter 2, Volume 2. Relativistic mechanics
  346. Physics 511A, 2014: Chapter 2, Volume 8. Electrostatics of dielectric
  347. Physics 511A, 2014: Chapter 3, Volume 2. Charges in electromagnetic field
  348. Physics 511A, 2014: Chapter 3, Volume 8. Steady current
  349. Physics 511A, 2014: Chapter 4, Volume 2. Electromagnetic field equations
  350. Physics 511A, 2014: Chapter 4, Volume 8. Static magnetic field
  351. Physics 511A, 2014: Chapter 5, Volume 2. Constant electromagnetic fields
  352. Physics 511A, 2014: Chapter 5, Volume 8. Ferromagnetism and antiferromagnetism
  353. Physics 511A, 2014: Chapter 6, Volume 2. Electromagnetic waves
  354. Physics 511A, 2014: Chapter 7, Volume 2. Propagation of light
  355. Physics 511A, 2014: Chapter 8, Volume 2. The field of moving charges
  356. Physics 511A, 2014: Chapter 9, Volume 2. Radiation of electromagnetic waves
  357. Physics 511A, 2014: Graduate Electrodynamics
  358. Physics 511A, 2014: Superconductivity
  359. Physics 511A, 2014: Waves in media
  360. Postdoctoral position in theoretical biophysics
  361. Presentations
  362. Professional
  363. Projects
  364. Publications
  365. Publications about our research
  366. RBC Metabolic Network
  367. Relational networks
  368. Research Interests
  369. Reverse-engineering algorithms benchmarks
  370. Reverse engineering cellular networks
  371. Rise of the 140 character paper
  372. Schwab et al., 2014
  373. Silbergleit et al., 2003a
  374. Silbergleit et al., 2003b
  375. Simpler methods for High Throughput Data analysis
  376. Singh et al., 2014
  377. Sinitsyn and Nemenman, 2007
  378. Sinitsyn and Nemenman, 2007a
  379. Sinitsyn and Nemenman, 2010
  380. Sinitsyn et al., 2009
  381. Smart Thoughts From Smart People
  382. Smith et al., 2016
  383. Srivastava et al., 2017
  384. Stochastic dynamics on biological networks
  385. Stochastic path integral
  386. Stochasticity in regulatory networks
  387. Stromberg et al., 2013
  388. Studies in sensorimotor adaptation to advance motor rehabilitation
  389. Tanase-Nicola and Nemenman, 2011
  390. Tang et al., 2014
  391. Tchernookov and Nemenman, 2013
  392. Teaching
  393. Teuscher et al, 2008
  394. The Berry phase in stochastic kinetics
  395. Tools and approximations for stochastic analysis
  396. Visual neural computation
  397. Wang et al., 2005
  398. Wang et al., 2006
  399. Wang et al., 2007
  400. Wang et al., 2009
  401. Wei et al., 2011
  402. Wiggins and Nemenman, 2003
  403. Ziv et al., 2007

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