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Mappingchange inlargeintegratedsystems MartinRosvall AlcidesV.Esquivel,AtiehMirshahvalad, DanielEdler,andCarlBergstrom

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(1)

Mapping change

in large integrated systems

Martin Rosvall

Alcides V. Esquivel, Atieh Mirshahvalad,

Daniel Edler, and Carl Bergstrom

(2)

Aquatic Ecology

Ecology & Evolution Geology

Geophysics & Climatology

Entomology

Environmental Science Soil Science

Hydrology Aquaculture Fisheries Science Molecular & Cell Biology

Medicine

Neuroscience

Immunology & Hematology Psychiatry & Psychology

Oncology Infectious Disease

Applied Microbiology

Gastroenterology & Hepatology

Botany

Respiratory Medicine Radiology

Nephrology Reproductive Medicine

Orthopedics

Ophthalmology Toxicology

Food science Rheumatology Veterinary Urology Dentistry

Dermatology Sports Medicine

Otolaryngology

Anesthesiology

Bone

Neurosurgery

Pharmacokinetics & Pharmacodynamics

Gene Therapy Ethnopharmacology

Physics Chemistry

Materials Science

High-energy Physics Polymer Science

Optics Chemical Engineering

Analytical Chemistry Medicinal Chemistry

Electrochemistry Astrophysics & Astronomy

Drug Delivery Fluid Mechanics

Applied Mechanics

Radiation Plasma Physics Acoustics

Renewable Energy Mathematics Applied Math

Discrete Math & Computer Science Microwaves & Circuits

Communications Engineering

Software Engineering Computer Vision

Probability Theory

Applied Computation

Operations Research Robotics

Cybernetics Power Engineering

Economics Finance

Political Science Business & Management

Statistics Sociology

Geography

Law Education

Physical Sciences

Life Sciences

Ecology & Earth Sciences Social Sciences

Rosvall & Bergstrom (2011)

(3)

Aquatic Ecology

Ecology & Evolution Geology

Geophysics & Climatology

Entomology

Environmental Science Soil Science

Hydrology Aquaculture Fisheries Science Molecular & Cell Biology

Medicine

Neuroscience

Immunology & Hematology Psychiatry & Psychology

Oncology Infectious Disease

Applied Microbiology

Gastroenterology & Hepatology

Botany

Respiratory Medicine Radiology

Nephrology Reproductive Medicine

Orthopedics

Ophthalmology

Toxicology

Food science Rheumatology

Veterinary

Urology Dentistry

Dermatology Sports Medicine

Otolaryngology

Anesthesiology

Bone

Neurosurgery

Pharmacokinetics & Pharmacodynamics

Gene Therapy Ethnopharmacology

Physics Chemistry

Materials Science

High-energy Physics Polymer Science

Optics Chemical Engineering

Analytical Chemistry Medicinal Chemistry

Electrochemistry

Astrophysics & Astronomy

Drug Delivery Fluid Mechanics

Applied Mechanics

Radiation

Plasma Physics Acoustics

Renewable Energy Mathematics

Applied Math

Discrete Math & Computer Science Microwaves & Circuits

Communications Engineering

Software Engineering Computer Vision

Probability Theory

Applied Computation

Operations Research Robotics

Cybernetics Power Engineering

Economics Finance

Political Science Business & Management

Statistics

Sociology Geography

Law

Education

Physical Sciences

Life Sciences

Ecology & Earth Sciences

Social Sciences

(4)

Molecular &

cell biology Medicine Oncology Psychiatry Neurology Psychology Nephrology

Molecular &

cell biology Medicine Neuroscience Oncology Psychiatry Urology

Infectious diseases Psychology Nephrology

2001 2003 2005 2007

Rosvall & Bergstrom (2010)

(5)
(6)
(7)
(8)

Courtesy of Aaron Koblin

(9)
(10)
(11)
(12)
(13)

How are these systems organized?

with respect to the flow?

(14)

How are these systems organized?

with respect to the flow?

(15)

Networks describe flow

beyond nearest neighbors

(16)

Networks describe flow

beyond nearest neighbors

(17)
(18)
(19)
(20)

Barabasi, A.L.

Jeong, H.

Albert, R.

Oltvai, Z.N.

Ravasz, E.

Yook, S.H.

Neda, Z.

Schuberts, A.

Tombor, B.

Dezso, Z.

Kovacs, B.

Mongru, D.A.

Podani, J.

Ravasz, R.

Somera, A.L.

Szathmary, E.

Wuchty, S.

Beg, Q.K.

Dobrin, R.

Mason, S.P.

Tu, Y.

Arenas, A.

Diaz-Guilera, A.

Guimera, R.

Danon, L.

Duch, J.

Gomez, S.

Fernandez, A.

Giralt, F.

Cabrales, A.

Gleiser, P.M.

Vega-Redondo, F.

Diaz-Aguilera, A.

Jensen, P.

Rubi, M.

Pastor-Satorras, R.

Vespignani, A.

Vazquez, A.

Boguna, M.

Barrat, A.

Weigt, M.

Rubi, J.

Soffer, S.N.

Flammini, A.

Zecchina, R.

Latora, V.

Marchiori, M.

Crucitti, P.

Rapisarda, A.

Pluchino, A.

Porta, S.

Castellani, G.C.

Franceschi, C.

Remondini, D.

Tieri, P.

Valensin, S.

Ivanchenko, M.

Caruso, F.

Kinney, R.

Amaral, L.A.N.

Barthelemy, M.

Stanley, H.E.

Sales-Pardo, M.

Edling, C.R.

Liljeros, F.

Moreira, A.A.

Mossa, S.

Provero, P.

Scala, A.

Aberg, Y.

Andrade J.S., Jr.

Camacho, J.

Gondran, B.

Guichard, E.

Herrmann, C.

Sawardecker, E.N.

Turtschi, A.

Newman, M.E.J.

Moore, C.

Clauset, A.

Girvan, M.

Gastner, M.T.

Leicht, E.A.

Lusseau, D.

Barkema, T.

De Montjoye, Y.

Good, B.H.

Jin, E.M.

Kalapala, V.K.

Karrer, B.

Levina, E.

Sanwalani, V.

Sole, R.V.

Valverde, S.

Ferrer I Cancho, R.

Kuntz, P.

Montoya, J.M.

Smith, E.

Buhl, J.

Deneubourg, J.L.

Gautrais, J.

Theraulaz, G.

Cancho, R.F.

De Fraysseix, H.

Garcia-Fernandez, J.

Janssen, C.

Kohler, R.

Salazar-Ciudad, I.

Kepler, T.B.

Boccaletti, S.

Hwang, D.U.

Valladares, D.L.

Bragard, J.

Chavez, M.

Mancini, H.

Hentschel, H.G.E.

Amann, A.

Mancini, H.L.

Maza, D.

Mendoza, C.

Vannucchi, F.S.

Lopez-Ruiz, R.

Vallone, A.

Moreno, Y.

Pacheco, A.F.

Gomez-Gardenes, J.

Gomez, J.B.

Echenique, P.

Nekovee, M.

Floria, L.M.

Vazquez-Prada, M.

Kertesz, J.

Kaski, K.

Onnela, J.P.

Kumpula, J.M.

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Szabo, G.

Chakraborti, A.

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Tibely, G.

Heimo, T.

Jari Saramaki, J.

Kivela, M.

Kahng, B.

Goh, K.I.

Kim, D.

Oh, E.S.

Oh, E.

Rho, K.

Jung, S.

Kim, S.

Park, Y.

Kim, J.H.

Lee, D.S.

Kurths, J.

Pikovsky, A.S.

Rosenblum, M.G.

Zhou, C.S.

Osipov, G.V.

Abel, H.H.

Park, E.H.

Schafer, C.

Zaks, M.A.

Freund, H.J.

Tass, P.

Volkmann, J.

Weule, M.G.

Kim, B.J.

Holme, P.

Choi, M.Y.

Trusina, A.

Hong, H.

Minnhagen, P.

Han, S.K.

Huss, M.

Yoon, C.N.

Chung, J.S.

Park, H.

Vicsek, T.

Palla, G.

Farkas, I.J.

Derenyi, I.

Adamcsek, B.

D'Ovidio, F.

Marodi, M.

Pollner, P.

Abel, D.

Schurbert, A.

Tomkins, A.S.

Kumar, R.S.

Raghavan, P.

Rajagopalan, S.

Novak, J.

Chakrabarti, D.

Kumar, S.R.

Sivakumar, D.

Upfal, E.

Backstrom, L.

Broder, A.

Maghoul, F.

Stata, R.

Wiener, J.

Fortunato, S.

Castellano, C.

Lancichinetti, A.

Radicchi, F.

Ramasco, J.J.

Cecconi, F.

Loreto, V.

Parisi, D.

Vilone, D.

Mungan, M.

Porter, M.A.

Mucha, P.J.

Jones, N.S.

Traud, A.L.

Fenn, D.J.

Fowler, J.H.

Friend, A.J.

Johnson, N.F.

Mcdonald, M.

Richardson, T.

Williams, S.

Deane, C.M.

Kelsic, E.D.

Lewis, A.C.F.

Warbrand, C.M.

Warmbrand, C.M.

Havlin, S.

Cohen, R.

Ben-Avraham, D.

Erez, K.

Makse, H.A.

Schwartz, N.

Song, C.

Rozenfeld, A.F.

Dorogovtsev, S.N.

Mendes, J.F.F.

Samukhin, A.N.

Goltsev, A.V.

Di, Z.

Fan, Y.

Zhang, P.

Li, M.

Wu, J.

Hu, Y.

Chen, H.

Gan, G.

Ma, C.

Bornholdt, S.

Ebel, H.

Reichardt, J.

Leone, M.

Davidsen, J.

Mielsch, L.I.

Rohlf, T.

Stauffer, D.

Da Fontoura Costa, L.

Aharony, A.

Adler, J.

Bernardes, A.T.

Diambra, L.

Meyer-Ortmanns, H.

Rodrigues, F.A.

Travieso, G.

Araujo, A.D.

Costa, U.M.S.

Motter, A.E.

Lai, Y.C.

Liu, Z.

De Moura, A.P.S.

Hoppensteadt, F.C.

Nishikawa, T.

Grebogi, C.

Ye, N.

Zhou, C.

Dasgupta, P.

Lawrence, S.R.

Giles, C.L.

Flake, G.W.

Coetzee, F.M.

Bollacker, K.

Glover, E.J.

Pennock, D.M.

Lee Giles, C.

Sneppen, K.

Maslov, S.

Eriksen, K.A.

Simonsen, I.

Bak, P.

Zaliznyak, A.

Rinaldo, A.

Maritan, A.

Rodriguez-Iturbe, I.

Banavar, J.R.

Rigon, R.

Cieplak, M.

Fedroff, N.V.

Giacometti, A.

Holter, N.S.

Mitra, M.

Watts, D.J.

Dodds, P.S.

Muhamad, R.

Rothman, D.H.

Sabel, C.F.

Caldarelli, G.

Capocci, A.

Servedio, V.D.P.

Castri, M.

Rios, P.D.L.

Colaiori, F.

Krapivsky, P.L.

Redner, S.

Antal, T.

Leyvraz, F.

Vazquez, F.

Kim, J.

Chen, G.

Li, C.

Li, X.

Wang, X.F.

Lu, J.

Yu, X.

Xu, J.

Chen, D.

Tadic, B.

Rodgers, G.J.

Thurner, S.

Darby-Dowman, K.

Ergun, G.

Mitrovic, M.

Sokolov, I.M.

Blumen, A.

Jespersen, S.

Sander, L.M.

Warren, C.P.

Koopman, J.

Simon, C.

Xulvi-Brunet, R.

Strogatz, S.H.

Mirollo, R.E.

Callaway, D.S.

Hopcroft, J.E.

Matthews, P.C.

Yeung, M.K.S.

Hu, G.

Hu, B.

Yang, J.

Gao, Z. Liu, W.

Zhan, M.

Zheng, Z.

Bianconi, G.

Perez Vicente, C.J.

Acebron, J.A.

Bonilla, L.L.

Coolen, A.C.C.

Marsili, M. Pin, P.

Ritort, F.

Spigler, R.

Schnitzler, A.

Gross, J.

Hamalainen, M.

Hari, R.

Ilmoniemi, R.

Knuutila, J.

Kujala, J.

Lounasmaa, O.V.

Salmelin, R.

Timmermann, L.

Pecora, L.M.

Carroll, T.L.

Heagy, J.F.

Pelaez, A.

Fink, K.S.

Johnson, G.

De Los Rios, P.

Gfeller, D.

Chappelier, J.C.

Coccetti, F.

Brunet, R.

Petermannn, T.

Fortuna, L.

La Rosa, M.

Frasca, M.

Cosenza, S.

Stagni, C.

Usai, L.

Bucolo, M.

Spata, A.

Mantegna, R.N.

Bonanno, G.

Lillo, F.

Tumminello, M.

Vandewalle, N.

Almaas, E.

Kulkarni, R.V.

Stroud, D.

Macdonald, P.J.

Williams, R.J.

Martinez, N.D.

Dunne, J.A.

Berlow, E.L.

Koch, C.

Schuster, H.G.

Crick, F.

Kreiman, G.

Laurent, G.

Ress, G.

Kammen, D.M.

Niebur, E.

Moukarzel, C.F.

Argollo De Menezes, M.

De Menezes, M.A.

Penna, T.J.P.

Zhou, T.

Wang, B.H.

Chen, E.H.

Ding, J.F.

Jiang, X.Y.

Liu, J.G.

Xiang, B.

Xie, Y.B.

Faloutsos, C.

Yu, P.S.

Faloutsos, M.

Faloutsos, P.

Palmer, C.R.

Papadimitriou, S.

Sun, J.

Ben-Jacob, E.

Ayali, A.

Cohen, I.

Czirok, A.

Golding, I.

Segev, R.

Shefi, O.

Shochet, O.

Herrmann, H.J.

De Arcangelis, L.

Gonzales, M.C.

Hong, D.C.

Roux, S.

Sousa, A.O.

Barahona, M.

Delvenne, J.C.

Lambiotte, R.

Evans, T.S.

Yaliraki, S.N.

Kleinberg, J.M.

Gorman, S.P.

Kulkarni, R.

Liben-Nowell, D.

Rosvall, M.

Bergstrom, C.T.

Axelsson, D.

Holyst, J.A.

Fronczak, A.

Aleksiejuk, A.

Fronczak, P.

Jedynak, M.

Sienkiewicz, J.

Munoz, M.A.

Marro, J.

Dickman, R.

Donetti, L.

Garrido, P.L.

Torres, J.J.

Noh, J.D.

Rieger, H.

Son, S.W.

White, D.R.

Reitz, K.P.

Koput, K.W.

Owen-Smith, J.

Powell, W.W.

Park, J.

Teichmann, S.A.

Apic, G.

Gough, J.

Lappe, M.

Wang, J.

De Wilde, P.

Fu, Z.

Krishnamurthy, B.

Zhang, Z.

Coppersmith, S.N.

Kadanoff, L.P.

Zhang, Y.

Braun, T.

Cerdeira, H.A.

Chen, S.

Yao, Y.

Bearman, P.S.

Moody, J.

Stovel, K.

Leskovec, J.

Dasgupta, A.

Lang, K.J.

Mahoney, M.W.

Xu, X.

Feng, Z.

Long, B.

Schweiger, T.

Yuruk, N.

Almendral, J.A.

Buldu, J.M.

Leyva, I.

Li, D.

Sendina-Nadal, I.

Wang, B.

Du, N.

Wang, Y.

Wu, B.

Yan, G.

Liao, X.

Ren, W.

Xiao, L.

Pietronero, L.

Bottaccio, M.

De Lucia, M.

Montuori, M.

Arecchi, F.T.

Allaria, E.

Di Garbo, A.

Meucci, R.

Louis, E.

Vragovic, I.

Chate, H.

Gregoire, G.

Rudzick, O.

Forrest, S.

Balthrop, J.

Kaplan, T.D.

Garlaschelli, D.

Loffredo, M.I.

Battiston, S.

Catanzaro, M.

Guardiola, X.

Llas, M.

Perez, C.J.

Angel, M.L.

Martin, M.

Schrag, S.

Albert, I.

Nakarado, G.L.

(21)

Google Maps for networks

(22)
(23)

depict regularities Maps

in the dynamics on networks

using less information

(24)

depict regularities Maps

in the dynamics on networks

using less information

(25)

Finding regularities ⇐⇒ Compression

5.8MB (tiff) → 0.91MB (tiff + LZW)

5.8MB (tiff) → 2.8MB (tiff + LZW)

(26)

If we can find a good code for describing flow on a network, we will have solved the dual problem

of finding the important structures

with respect to that flow

(27)

We use a modular code structure that can exploit regions in the network

in which units of flow tend to stay

for a relatively long time

(28)

Two-level partitions

How many modules are present? And which nodes are members of which modules?

Maximal compression of flow with constraints:

1. Modular code structure 2. No more than two levels

3. Each node can only belong to one module

(29)

Two-level partitions with the map equation

How many modules are present? And which nodes are members of which modules?

Maximal compression of flow with constraints:

1. Modular code structure 2. No more than two levels

3. Each node can only belong to one module

(30)

Two-level partitions with the map equation

L ( M ) = q y H (Q) +

m

X

i = 1

p i H (P i )

(31)

Two-level partitions with the map equation

B A

2 1

3

L(M) = H(P) = 4.75 bits.

L(M) = q x H(Q) +

 

  p 1 H(P 1 ) p 2 H(P 2 ) p 3 H(P 3 )

= 3.68 bits.

| {z } 0.12 bits

| {z }

3.56 bits

(32)

Two-level partitions with the map equation

A B

2

7

8 9

4

5 6 1

3

2 3

1

L(M) = q x H(Q) +

 

  p 1 H(P 1 ) p 2 H(P 2 ) p 3 H(P 3 )

= 3.68 bits.

| {z } 0.12 bits

| {z } 3.56 bits

L(M) = q x H (Q) +

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

  p 1 H(P 1 ) p 2 H(P 2 ) p 3 H(P 3 ) p 4 H(P 4 ) p 5 H(P 5 ) p 6 H(P 6 ) p 7 H(P 7 ) p 8 H(P 8 ) p 9 H(P 9 )

= 3.57 bits.

| {z } 0.97 bits

| {z }

2.60 bits

(33)

Science 2010

10,000 journals 1,000,000 articles 10,000,000 citations

Thomson Scientific Journal Citation Reports

2010

(34)

Molecular & Cell Biology

Medicine

Physics

Ecology & Evolution Economics

Geosciences

Psychology

Chemistry

Psychiatry

Environmental Chemistry & Microbiology Mathematics

Computer Science

Analytic Chemistry Business & Marketing

Political Science

Fluid Mechanics

Medical Imaging

Material Engineering

Sociology

Probability & Statistics

Astronomy & Astrophysics

Gastroenterology Law

Chemical Engineering

Education Telecommunication

Control Theory Operations Research

Ophthalmology

Crop Science Geography

Anthropology Computer Imaging

Agriculture

Parasitology

Dentistry

Dermatology Urology

Rheumatology Applied Acoustics

Pharmacology

Pathology Otolaryngology

Electromagnetic Engineering Circuits

Power Systems Tribology

Neuroscience

Orthopedics Veterinary Environmental Health

A

Citation flow from B to A Citation flow within field

Citation flow from A to B

Citation flow out of field

B

(35)

Molecular & Cell Biology

Medicine

Physics

Ecology & Evolution Economics

Geosciences

Psychology

Chemistry

Psychiatry

Environmental Chemistry & Microbiology Mathematics

Computer Science

Analytic Chemistry Business & Marketing

Political Science

Fluid Mechanics

Medical Imaging

Material Engineering

Sociology

Probability & Statistics

Astronomy & Astrophysics

Gastroenterology Law

Chemical Engineering

Education

Telecommunication

Control Theory Operations Research

Ophthalmology

Crop Science Geography

Anthropology Computer Imaging

Agriculture

Parasitology

Dentistry

Dermatology Urology

Rheumatology

Applied Acoustics

Pharmacology

Pathology Otolaryngology

Electromagnetic Engineering Circuits

Power Systems Tribology

Neuroscience

Orthopedics Veterinary Environmental Health

A

Citation flow from B to A

Citation flow within field

Citation flow from A to B

Citation flow out of field

B

(36)

Multilevel partitions

Into how many hierarchical levels is a given network organized? How many modules are present at each level? And which nodes are members of which modules?

Maximal compression of flow with constraints:

1. Modular code structure 2. No more than two levels

3. Each node can only belong to one module

(37)

Multilevel partitions with the map equation Into how many hierarchical levels is a given network organized? How many modules are present at each level? And which nodes are members of which modules?

Maximal compression of flow with constraints:

1. Modular code structure 2. No more than two levels

3. Each node can only belong to one module

(38)

Multilevel partitions with the map equation

A 1 B

3 2

4

5 6 7

8 9

3 2

1

3

1

1

2 3 1

2 3

2

L(M) = q x H(Q) +

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

  p 1 H(P 1 ) p 2 H(P 2 ) p 3 H(P 3 ) p 4 H(P 4 ) p 5 H(P 5 ) p 6 H(P 6 ) p 7 H(P 7 ) p 8 H(P 8 ) p 9 H(P 9 )

= 3.57 bits.

| {z } 0.97 bits

| {z } 2.60 bits

L(M) = q x H(Q) +

 

 

 

 

 

 

 

 

 

 

 

 

 

 

 

  q 1 H(Q 1 ) +

 

  p 11 H(P 11 ) p 12 H(P 12 ) p 13 H(P 13 ) q 2 H(Q 2 ) +

 

  p 21 H(P 21 ) p 22 H(P 22 ) p 23 H(P 23 ) q 3 H(Q 3 ) +

 

  p 31 H(P 31 ) p 32 H(P 32 ) p 33 H(P 33 )

= 3.48 bits.

| {z } 0.12 bits

| {z } 0.76 bits

| {z }

2.60 bits

(39)

Aquatic Ecology

Ecology & Evolution Geology

Geophysics & Climatology

Entomology

Environmental Science Soil Science

Hydrology Aquaculture Fisheries Science Molecular & Cell Biology

Medicine

Neuroscience

Immunology & Hematology Psychiatry & Psychology

Oncology Infectious Disease

Applied Microbiology

Gastroenterology & Hepatology

Botany

Respiratory Medicine Radiology

Nephrology Reproductive Medicine

Orthopedics

Ophthalmology Toxicology

Food science Rheumatology Veterinary Urology Dentistry

Dermatology Sports Medicine

Otolaryngology

Anesthesiology

Bone

Neurosurgery

Pharmacokinetics & Pharmacodynamics

Gene Therapy Ethnopharmacology

Physics Chemistry

Materials Science

High-energy Physics Polymer Science

Optics Chemical Engineering

Analytical Chemistry Medicinal Chemistry

Electrochemistry Astrophysics & Astronomy

Drug Delivery Fluid Mechanics

Applied Mechanics

Radiation Plasma Physics Acoustics

Renewable Energy Mathematics Applied Math

Discrete Math & Computer Science Microwaves & Circuits

Communications Engineering

Software Engineering Computer Vision

Probability Theory

Applied Computation

Operations Research Robotics

Cybernetics Power Engineering

Economics Finance

Political Science Business & Management

Statistics Sociology

Geography

Law Education

Physical Sciences

Life Sciences

Ecology & Earth Sciences

Social Sciences

(40)

Aquatic Ecology

Ecology & Evolution Geology

Geophysics & Climatology

Entomology

Environmental Science Soil Science

Hydrology Aquaculture Fisheries Science Molecular & Cell Biology

Medicine

Neuroscience

Immunology & Hematology Psychiatry & Psychology

Oncology Infectious Disease

Applied Microbiology

Gastroenterology & Hepatology

Botany

Respiratory Medicine Radiology

Nephrology Reproductive Medicine

Orthopedics

Ophthalmology

Toxicology

Food science Rheumatology

Veterinary

Urology Dentistry

Dermatology Sports Medicine

Otolaryngology

Anesthesiology

Bone

Neurosurgery

Pharmacokinetics & Pharmacodynamics

Gene Therapy Ethnopharmacology

Physics Chemistry

Materials Science

High-energy Physics Polymer Science

Optics Chemical Engineering

Analytical Chemistry Medicinal Chemistry

Electrochemistry

Astrophysics & Astronomy

Drug Delivery Fluid Mechanics

Applied Mechanics

Radiation

Plasma Physics Acoustics

Renewable Energy Mathematics

Applied Math

Discrete Math & Computer Science Microwaves & Circuits

Communications Engineering

Software Engineering Computer Vision

Probability Theory

Applied Computation

Operations Research Robotics

Cybernetics Power Engineering

Economics Finance

Political Science Business & Management

Statistics

Sociology Geography

Law

Education

Physical Sciences

Life Sciences

Ecology & Earth Sciences

Social Sciences

(41)

Overlapping partitions

How many modules are present? Which nodes are members of which modules? And which nodes should belong to multiple modules and to what degree?

Maximal compression of flow with constraints:

1. Modular code structure 2. No more than two levels

3. Each node can only belong to one module

(42)

Overlapping partitions with the map equation How many modules are present? Which nodes are members of which modules? And which nodes should belong to multiple modules and to what degree?

Maximal compression of flow with constraints:

1. Modular code structure 2. No more than two levels

3. Each node can only belong to one module

(43)

Overlapping partitions with the map equation

B A

2 1 2

1

L(M) = q x H (Q) + ( p 1 H (P 1 )

p 2 H (P 2 ) = 2.86 bits.

| {z } 0.13 bits

| {z } 2.73 bits

L(M) = q x H(Q) + ( p 1 H(P 1 )

p 2 H(P 2 ) = 2.67 bits.

| {z } 0.063 bits

| {z }

2.61 bits

(44)
(45)

Memory networks capture real organization

Helsinski Trondheim Oslo Stockholm Bergen Stavanger

Copenhagen Frankfurt Berlin Paris

Barcelona

Orlando New York

Boston Toronto Minneapolis Seattle

Reykjavik

Madrid

0.2 0.4 0.6 0.8 1.0

0.0

One big module

Two nonoverlapping modules Two o verlapp

ing mo dules

Codelength

Return rate

(46)

Memory networks capture real organization

Helsinski Trondheim Oslo Stockholm Bergen Stavanger

Copenhagen Frankfurt Berlin Paris

Barcelona

Orlando New York

Boston Toronto Minneapolis Seattle

Reykjavik

Madrid

0.2 0.4 0.6 0.8 1.0

0.0

One big module

Two nonoverlapping modules Two o verlapp

ing mo dules

Codelength

Return rate

(47)

Multilevel and overlapping partitions

Into how many hierarchical levels is a given network organized? How many modules are present at each level? Which nodes are members of which modules? And which nodes should

belong to multiple modules and to what degree?

Maximal compression of flow with constraints:

1. Modular code structure 2. No more than two levels

3. Each node can only belong to one module

(48)

Multilevel and overlapping partitions with the map...

Into how many hierarchical levels is a given network organized? How many modules are present at each level? Which nodes are members of which modules? And which nodes should

belong to multiple modules and to what degree?

Maximal compression of flow with constraints:

1. Modular code structure 2. No more than two levels

3. Each node can only belong to one module

(49)

CHANGE

(50)

Mapping change in science

Molecular &

cell biology Medicine Oncology Psychiatry Neurology Psychology Nephrology

Molecular &

cell biology Medicine Neuroscience Oncology Psychiatry Urology

Infectious diseases Psychology Nephrology

2001 2003 2005 2007

Rosvall & Bergstrom (2010)

(51)

What is real change

and what is mere noise?

(52)

Significance clustering

Clustering

Significance clustering

Clustering

Bootstrap world

Resampling

Real world

(53)

Significance clustering

Real world

Resampling

Clustering

Bootstrap world

Significance clustering

Clustering

(54)

Significance clustering

Real world

Resampling

Clustering Clustering

Bootstrap world

Significance

clustering

(55)

Significance clustering

Real world

Resampling

Clustering Clustering

clustering Significance

Bootstrap world

(56)

Mapping change

Significance clustering

Time 1 Time 2

Mapping change with alluvial diagram

Real world 2 Bootstrap world 2

Resampling

Clustering Clustering

Significance clustering

Real world 1 Bootstrap world 1

Resampling

Clustering Clustering

Time 2

Time 1

(57)

Mapping change Significance clustering

Time 1 Time 2

Mapping change with alluvial diagram

Real world 2 Bootstrap world 2

Resampling

Clustering Clustering

Significance clustering

Real world 1 Bootstrap world 1

Resampling

Clustering Clustering

Time 2

Time 1

(58)

Mapping change in science

Molecular &

cell biology Medicine Oncology Psychiatry Neurology Psychology Nephrology

Molecular &

cell biology Medicine Neuroscience Oncology Psychiatry Urology

Infectious diseases Psychology Nephrology

2001 2003 2005 2007

Rosvall & Bergstrom (2010)

(59)

Mapping change in the federal funds market

Jul 16 KT2,...

XM3,...

KA8,...

DC8,...

IB6,...

HQ3,...

Jul 30 Aug 13 Aug 27 Sep 10 Sep 24 Oct 8 Oct 22 Nov 5 Nov 19 Dec 3 Dec 17 Dec 31

UC5,... KA8,... UT1,... CV1,... KE5,... HQ3,... IB6,... ZL1,... JL1,...

(60)

Mapping change in the federal funds market

UC5,... KA8,...

DC8,...

HQ3,...

XG9,...

UC5,...

IB6,... ZT4

RA1

ZL1,...

HE3

YS3,...

GT8,...

QG4,...

A B C

Oct 8 UC5,...

KA8,...

IB6,...

DC8,...

HQ3,...

XG9,...

Oct 22 UC5,...

IB6,...

ZT4 RA1

ZL1,...

HE3 YS3,...

GT8,...

QG4,...

IB6,...

(61)

Resampling effects

J1

J2 J3

J5 J4

J1

J2 J3

J5 J4

J1

J2 J3

J5 J4

Article resampling

Multinomial resampling

Poisson resampling

A

B

C

(62)

Resampling effects on ranking

0.02 0.015

0.01 0.005

0

Page rank Article

Multinomial Poisson

t t e L v e R s y h

P S c i e n c e

New Engl J Med J Neurosci

Environ Sci Technol

(8) (7) (8) (7) (7) (8)

(6) (5) (5) (6) (6) (5) (14)

(14) (14)

(14) (14) (14) (71)

(69) (68) (76) (78) (78)

(1) (2) (2)

(1)

(1)

(1)

(63)

Resampling effects on clustering

1991 1992 1993

Poisson resampling

General physics

Nuclear & particle physics

General physics

1989 1990

General physics

General physics Nuclear & particle physics

1989 1990

Article resampling

1991 1992 1992 1993

A

General physics

General physics Nuclear & particle physics

1989 1990

Multinomial resampling

1991 1992 1993

B

C

(64)

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