# Latent Tree Models Part IV: Applications Nevin L. Zhang Dept. of Computer Science & Engineering The Hong Kong Univ. of Sci. & Tech.

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Latent Tree Models Part IV: Applications Nevin L. Zhang Dept. of Computer Science & Engineering The Hong Kong Univ. of Sci. & Tech. http://www.cse.ust.hk/~lzhang AAAI 2014 Tutorial

AAAI 2014 Tutorial Nevin L. Zhang HKUST2  What can LTA be used for:  Discovery of co-occurrence patterns in binary data  Discovery of correlation patterns in general discrete data  Discovery of latent variable/structures  Multidimensional clustering  Topic detection in text data  Probabilistic modelling  Applications  Analysis of survey data  Market survey data, social survey, medical survey data  Analysis of text data  Topic detection  Approximate probabilistic inference Applications of Latent Tree Analysis (LTA)

AAAI 2014 Tutorial Nevin L. Zhang HKUST3 Part IV: Applications  Approximate Inference in Bayesian Networks  Analysis of social survey data  Topic detection in text data  Analysis of medical symptom survey data  Software

AAAI 2014 Tutorial Nevin L. Zhang HKUST4  Attractive Representation of Joint Distributions  Computationally very simple to work with.  Represent complex relationships among observed variables.  What does the structure look like without the latent variables? LTMs for Probabilistic Modelling

AAAI 2014 Tutorial Nevin L. Zhang HKUST5  In a Bayesian network over observed variables, exact inference can be computationally prohibitive.  Two-phase approximate inference:  Offline  Sample data set from the original network  Learn a latent tree model (secondary representation)  Online  Make inference using the latent tree model. (Fast) Approximate Inference in Bayesian Networks (Wang et al. AAAI 2008) Sample Learn LTM

AAAI 2014 Tutorial Nevin L. Zhang HKUST6  Alternatives  LTM (1k), LTM (10k), LTM (100k): with different sample size for Phase 1.  CL (100k): Phase 1 learns Chow-Liu tree  LCM (100k): Phase 1 learns latent class model  Loopy Belief Propagation (LBP)  Original networks  ALARM, INSURANCE, MILDEW, BARLEY, etc.  Evaluation:  500 random queries  Quality of approximation measured using KL from exact answer. Empirical Evaluations

AAAI 2014 Tutorial Nevin L. Zhang HKUST7  C: cardinality of latent variables  When C is large enough, LTM achieves good approximation in all cases.  Better than LBP on g, d,h  Better than CL on d, h.  Key Advantage: Online phase is 2 to 3 orders of magnitude faster than exact inference Empirical Results sparse dense

AAAI 2014 Tutorial Nevin L. Zhang HKUST8 Part III: Applications  Approximate Inference in Bayesian networks  Analysis of social survey data  Topic detection  Analysis of medical symptom survey data  Software

AAAI 2014 Tutorial Nevin L. Zhang HKUST9 Social Survey Data // Survey on corruption in Hong Kong and performance of the anti-corruption agency -- ICAC //31 questions, 1200 samples C_City: s0 s1 s2 s3 // very common, quite common, uncommon, very uncommon C_Gov: s0 s1 s2 s3 C_Bus: s0 s1 s2 s3 Tolerance_C_Gov: s0 s1 s2 s3 //totally intolerable, intolerable, tolerable, totally tolerable Tolerance_C_Bus: s0 s1 s2 s3 WillingReport_C: s0 s1 s2 // yes, no, depends LeaveContactInfo: s0 s1 // yes, no I_EncourageReport: s0 s1 s2 s3 s4 // very sufficient, sufficient, average,... I_Effectiveness: s0 s1 s2 s3 s4 //very e, e, a, in-e, very in-e I_Deterrence:s0 s1 s2 s3 s4 // very sufficient, sufficient, average,... ….. -1 -1 -1 0 0 -1 -1 -1 -1 -1 -1 0 -1 -1 -1 0 1 1 -1 -1 2 0 2 2 1 3 1 1 4 1 0 1.0 -1 -1 -1 0 0 -1 -1 1 1 -1 -1 0 0 -1 1 -1 1 3 2 2 0 0 0 2 1 2 0 0 2 1 0 1.0 -1 -1 -1 0 0 -1 -1 2 1 2 0 0 0 2 -1 -1 1 1 1 0 2 0 1 2 -1 2 0 1 2 1 0 1.0 ….

AAAI 2014 Tutorial Nevin L. Zhang HKUST10 Latent Structure Discovery Y2: Demographic info; Y3: Tolerance toward corruption; Y4: ICAC performance; Y5: Change in level of corruption; Y6: Level of corruption; Y7: ICAC accountability

AAAI 2014 Tutorial Nevin L. Zhang HKUST11 Multidimensional Clustering Y2=s0: Low income youngsters; Y2=s1: Women with no/low income; Y2=s2: people with good education and good income; Y2=s3: people with poor education and average income.

AAAI 2014 Tutorial Nevin L. Zhang HKUST12 Multidimensional Clustering Y3=s0: people who find corruption totally intolerable; 57% Y3=s1: people who find corruption intolerable; 27% Y3=s2: people who find corruption tolerable; 15% Interesting finding: Y3=s2: 29+19=48% find C-Gov totally intolerable or intolerable; 5% for C-Bus Y3=s1: 54% find C-Gov totally intolerable; 2% for C-Bus Y3=s0: Same attitude toward C-Gov and C-Bus People who are tough on corruption are equally tough toward C-Gov and C-Bus. People who are lenient about corruption are more lenient C-Bus than C-GOv

AAAI 2014 Tutorial Nevin L. Zhang HKUST13 Multidimensional Clustering  Who are the toughest toward corruption among the 4 groups? Y2=s2: ( good education and good income) the least tolerant. 4% tolerable Y2=s3: (poor education and average income) the most tolerant. 32% tolerable The other two classes are in between.  Summary: Latent tree analysis of social survey data can reveal Interesting latent structures Interesting clusters Interesting relationships among the clusters.

AAAI 2014 Tutorial Nevin L. Zhang HKUST14 Part III: Applications  Approximate Inference  Analysis of social survey data  Topic detection (Analysis of text data)  Analysis of medical symptom survey data  Software

AAAI 2014 Tutorial Nevin L. Zhang HKUST15  Basics  Aggregation of miniature topics  Topic extraction and characterization  Empirical results Latent Tree Models for Topic Detection

 Topic: State of latent variable, soft collection of documents  Characterized by: Conditional probability of word given latent state, or, document frequency of word in collection: # docs containing the word / total # of docs in the topic  Probabilities all words for a topic (in a column) do not sum to 1.  Y1=2: oop; Y1=1: Programming; Y1=0: background  Background topics for other latent variables not shown. What is a topic in LTA? LTM for toy text data

AAAI 2014 Tutorial Nevin L. Zhang HKUST17  Topic: A collection of documents  A document is a member of a topic  Can belong to multiple topics with different probabilities  Probabilities for each document (in each row) do not sum to 1. How are topics and documents are related? D97, D115, D205, D528 are documents from the toy text data Table shows: l D97 is a web page on OOP from U of Wisconsin Madison l D528 is a web page on AI from U of Texas Austin

 LDA Topic: Distribution over vocabulary  Frequencies a writer would use each word when writing about the topic  Probabilities for a topic (in a column) sum to 1  In LDA a document is a mixture of topics (LTA: Topic is a collection of documents)  Probabilities in each row sum to 1 LTA Differs from Latent Dirichlet Allocation (LDA)

AAAI 2014 Tutorial Nevin L. Zhang HKUST19  Basics  Aggregation of miniature topics  Topic extraction and characterization  Empirical results Latent Tree Models for Topic Detection

AAAI 2014 Tutorial Nevin L. Zhang HKUST20  Latent variable give miniature topics.  Intuitively, more interesting topics can be detected if we combine  Z11, Z12, Z13  Z14, Z15, Z16  Z17, Z18, Z19  BI algorithm produces flat models: Each latent variable directly connected to at least one observed variables. Latent Tree Model for a Subset of Newsgroup Data

AAAI 2014 Tutorial Nevin L. Zhang HKUST21  Convert the latent variables into observed one via hard assignment.  Afterwards, Z11-Z19 become observed.  Run BI on Z11-Z19 Hierarchical Latent Tree Analysis (HLTA)

AAAI 2014 Tutorial Nevin L. Zhang HKUST22  Stack model for Z11-Z19 on top of model for the words  Repeat until no more than 2 latent variables or predetermined level reached.  The result is called a hierarchical latent tree model (HLTM) Hierarchical Latent Tree Analysis (HLTA)

AAAI 2014 Tutorial Nevin L. Zhang HKUST23  Part II: Cannot determine edge orientations based solely on data.  Here hierarchical structure introduced to improve model interpretability. Data + interpretability  hierarchical structure.  It does not necessarily improve model fit. Hierarchical Latent Tree Analysis (HLTA)

AAAI 2014 Tutorial Nevin L. Zhang HKUST24  Basics  Aggregation of miniature topics  Topic extraction and characterization  Empirical results Latent Tree Models for Topic Detection

AAAI 2014 Tutorial Nevin L. Zhang HKUST25  Interpreting states of Z21  Z11, Z12, and Z13 introduced because of co-occurrence of  “computer”, “Science”;  “card”, “display”, …., “video”; and  “dos”, “windows”  Z21 introduced because of correlations among Z11, Z12, Z13  So, interpretation of the states of Z21 is to be based on the words in the sub-tree rooted at Z21. They form the semantic base of Z21. Semantic Base

AAAI 2014 Tutorial Nevin L. Zhang HKUST26  Semantic base might be too large to handle.  Effective base: Subset of semantic base that matters.  Sort variables X i from semantic base in descending of I(Z; X i ).  I(Z; X 1, …, X i ): Mutual information between Z and first i-th variables  Estimated via sampling, increases with i.  I(Z; X 1, …, X m ): Mutual information between Z and all m variables in semantic base  Information coverage of the first i-th variable I(Z; X 1, …, X i )/ I(Z; X 1, …, X m ):  Effective semantic base:  Set of leading variables with information coverage higher than a certain level, i.e., 95%. Effective Semantic Base Chen et al. AIJ 2012

 Effective semantic bases are typically smaller than Semantic bases.  Z22: Semantic base --10 variables, Effective semantic base – 8 variable  Differences are much larger in models with hundreds of variables.  Words are the front are more informative in distinguishing between the states of the latent variable. Z22: Upper: Information coverage Lower: Mutual Information

AAAI 2014 Tutorial Nevin L. Zhang HKUST28  HLTA characterizes Latent state (topics) using probabilities of words from effective semantic base  NOT sorted according to probability, but mutual information  Topic Z22=s1 characterized using words  Occur with high probabilities in documents on to the topic, and  Occur with low probability in documents NOT on the topic.  LDA, HLDA, …  Topic characterized using words that occur with highest probability in the topic.  Not necessarily the best words to distinguish the topic from other topics. Topic Characterizations

AAAI 2014 Tutorial Nevin L. Zhang HKUST29  Basics  Aggregation of miniature topics  Topic extraction and characterization  Empirical results Latent Tree Models for Topic Detection

AAAI 2014 Tutorial Nevin L. Zhang HKUST30  Show the results of HLTA on real-world data  Compare HLTA with HLDA and LDA Empirical Results

AAAI 2014 Tutorial Nevin L. Zhang HKUST31  1,740 papers published at NIPS between 1988 – 1999.  Vocabulary:  1,000 words selected using average TF-IDF.  HLTA produced a model with 382 latent variables, arranged on 5 levels.  Level 1 – 279; Level 2 – 72; Level 3 - 21; Level 4 - 8; Level 5 - 2  Example topics on next few slides  Topic characterizations, topic sizes,  Topic groups, topic group labels.  For details: http://www.cse.ust.hk/~lzhang/ltm/index.htm NIPS Data

 likelihood bayesian statistical gaussian conditional 0.34 likelihood bayesian statistical conditional 0.16 gaussian covariance variance matrix 0.21 eigenvalues matrix gaussian covariance  trained classification classifier regression classifiers 0.25 validation regression svm machines 0.07 svm machines vapnik regression 0.38 trained test table train testing 0.30 classification classifier classifiers class cl  images image pixel pixels object 0.25 images image pixel pixels texture 0.16 receptive orientation objects object 0.21 object objects perception receptive  hidden propagation layer backpropagation units 0.40 hidden backpropagation multilayer architecture architectures 0.40 propagation layer units back net HLTA Topics: Level-3  reinforcement markov speech hmm transition 0.20 markov speech speaker hmms hmm 0.14 speech hmm speaker hmms markov 0.13 reinforcement sutton barto policy actions 0.10 reinforcement sutton barto actions policy  cells neurons cortex firing visual 0.17 visual cells cortical cortex activity 0.27 cells cortex cortical activity visual 0.33 neurons neuron synaptic synapses 0.18 membrane potentials spike spikes firing 0.15 firing spike membrane spikes potentials 0.18 circuit voltage circuits vlsi chip 0.26 dynamics dynamical attractor stable attractors  …..

 markov speech hmm speaker hmms 0.14 markov stochastic hmms sequence hmm 0.10 hmm hmms sequence markov stochastic 0.15 speech language word speaker acoustic 0.06 speech speaker acoustic word language 0.16 delay cycle oscillator frame sound 0.10 frame sound delay oscillator cycle 0.14 strings string length symbol HLTA Topics: Level-2  reinforcement sutton barto actions policy 0.12 transition states reinforcement reward 0.10 reinforcement policy reward states 0.14 trajectory trajectories path adaptive 0.12 actions action control controller agent 0.09 sutton barto td critic moore

 likelihood bayesian statistical conditional posterior 0.34 likelihood statistical conditional density 0.35 entropy variables divergence mutual 0.19 probabilistic bayesian prior posterior 0.11 bayesian posterior prior bayes 0.15 mixture mixtures experts latent 0.14 mixture mixtures experts hierarchical 0.34 estimate estimation estimating estimated 0.21 estimate estimation estimates estimated  gaussian covariance matrix variance eigenvalues 0.09 matrix pca gaussian covariance variance 0.23 gaussian covariance variance matrix pca 0.09 pca gaussian matrix covariance variance 0.18 eigenvalues eigenvalue eigenvectors ij 0.15 blind mixing ica coefficients inverse HLTA Topics: Level-2  regression validation vapnik svm machines 0.24 regression svm vapnik margin kernel 0.05 svm vapnik margin kernel regression 0.19 validation cross stopping pruning 0.07 machines boosting machine boltzmann  classification classifier classifiers class classes 0.28 classification classifier classifiers class 0.24 discriminant label labels discrimination 0.13 handwritten digit character digits  trained test table train testing 0.38 trained test table train testing 0.44 experiments correct improved improvement correctly  …

 likelihood statistical conditional density log 0.30 likelihood conditional log em maximum 0.42 statistical statistics 0.19 density densities  entropy variables variable divergence mutual 0.16 entropy divergence mutual 0.31 variables variable  bayesian posterior probabilistic prior bayes 0.19 bayesian prior bayes posterior priors 0.09 bayesian posterior prior priors bayes 0.29 probabilistic distributions probabilities 0.16 inference gibbs sampling generative 0.19 mackay independent averaging ensemble 0.08 belief graphical variational 0.09 monte carlo 0.09 uk ac HLTA Topics: Level-1  mixture mixtures experts hierarchical latent 0.19 mixture mixtures 0.34 multiple individual missing hierarchical 0.15 hierarchical sparse missing multiple 0.07 experts expert 0.32 weighted sum  estimate estimation estimated estimates estimating 0.38 estimate estimation estimated estimating 0.19 estimate estimates estimation estimated 0.29 estimator true unknown 0.33 sample samples 0.40 assumption assume assumptions assumed 0.27 observations observation observed  … Reason for aggregate miniature topics: Many Level 1 topics correspond to trivial word co-occurrences, not meaningful

Level 5  visual cortex cells neurons firing 0.37 visual cortex firing neurons cells 0.39 visual cells firing cortex neurons 0.25 images image pixel hidden trained 0.09 hidden trained images image pixel 0.20 trained hidden images image pixel 0.15 image images pixel trained hidden HLTA Topics: Level-4 & 5 Level 4  visual cortex cells neurons firing 0.34 cells cortex firing neurons visual 0.28 cells neurons cortex firing visual 0.41 approximation gradient optimization 0.29 algorithms optimal approximation 0.39 likelihood bayesian statistical gaussian  images image trained hidden pixel 0.22 regression classification classifier 0.29 trained classification classifier classifiers 0.02 classification classifier regression 0.28 learn learned structure feature features 0.23 feature features structure learn learned 0.24 images image pixel pixels object 0.13 reinforcement transition markov speech 0.14 speech hmm markov transition 0.40 hidden propagation layer backpropagation units

AAAI 2014 Tutorial Nevin L. Zhang HKUST37  Level 1: 279 latent variables  Many capture trivial word co-occurrence patterns  Level 2: 72 latent variables  Meaningful topics, and meaningful topic groups  Level 3 : 21 latent variables  Meaningful topics, and meaningful topic groups  More general than Level 2 topics  Level 4: 8 latent variables  Meaningful topics, very general  Level 5: 2 latent variables  Too few  In application, one can choose to output the topics at a certain level according the desired number of topics.  For NIPS data, either level-2 topics or level-3 topics. Summary of HLTA Results on NIPS Data

units hidden layer unit weight  gaussian log density likelihood estimate margin kernel support xi bound generalization student weight teacher optimal gaussian bayesian kernel evidence posterior chip analog circuit neuron voltage classifier rbf class classifiers classification speech recognition hmm context word ica independent separation source sources image images matching level object tree trees node nodes boosting variables variable bayesian conditional family face strategy differential functional weighting source grammar sequences polynomial regression derivative em machine annealing max min  regression prediction selection criterion query validation obs generalization cross pruning mlp risk classifier classification confidence loss song transfer bounds wt principal curve eq curves rules HLDA Topics  control optimal algorithms approximation step policy action reinforcement states actions experts mixture em expert gaussian convergence gradient batch descent means control controller nonlinear series forward distance tangent vectors euclidean distances robot reinforcement position control path bias variance regression learner exploration blocks block length basic experiment td evaluation features temporal expert path reward light stimuli paths Long hmms recurrent matrix term channel call cell channels rl  image images recognition pixel feature video motion visual speech recognition face images faces recognition facial ocular dominance orientation cortical cortex character characters pca coding field resolution false true detection context  ….

AAAI 2014 Tutorial Nevin L. Zhang HKUST39 inputs outputs trained produce actual dynamics dynamical stable attractor synaptic synapses inhibitory excitatory correlation power correlations cross states stochastic transition dynamic basis rbf radial gaussian centers solution constraints solutions constraint type elements group groups element edge light intensity edges contour recurrent language string symbol strings propagation back rumelhart bp hinton ii region regions iii chain graph matching annealing match context mlp letter nn letters fig eq proposed fast proc variables variable belief conditional i pp vol ca eds ieee LDA Topics units unit hidden connections connected hmm markov probabilities hidden hybrid object objects recognition view shape robot environment goal grid world entropy natural statistical log statistics experts expert gating architecture jordan trajectory arm inverse trajectories hand sequence step sequences length s gaussian density covariance densities positive negative instance instances np target detection targets FALSE normal activity active module modules brain mixture likelihood em log maximum channel stage channels call routing term long scale factor range …

AAAI 2014 Tutorial Nevin L. Zhang HKUST40 HLTA Topics  likelihood bayesian statistical conditional posterior 0.34 likelihood statistical conditional density 0.35 entropy variables divergence mutual 0.19 probabilistic bayesian prior posterior 0.11 bayesian posterior prior bayes 0.15 mixture mixtures experts latent 0.14 mixture mixtures experts hierarchical  reinforcement sutton barto actions policy 0.12 transition states reinforcement reward 0.10 reinforcement policy reward states 0.14 trajectory trajectories path adaptive 0.12 actions action control controller agent 0.09 sutton barto td critic moore Comparisons between HLTA and HLDA HLDA Topics  gaussian log density likelihood estimate margin kernel support xi bound generalization student weight teacher optimal gaussian bayesian kernel evidence posterior chip analog circuit neuron voltage classifier rbf class classifiers classification speech recognition hmm context word  control optimal algorithms approximation step policy action reinforcement states actions experts mixture em expert gaussian convergence gradient batch descent means control controller nonlinear series forward distance tangent vectors euclidean distances robot reinforcement position control path bias variance regression learner exploration blocks block length basic experiment  HLTA topics have sizes, HLDA/LDA topics do not  HLTA produces better hierarchy  HLTA gives better topic characterizations

AAAI 2014 Tutorial Nevin L. Zhang HKUST41  Suppose a topic t is described using M words  The topic coherence score for t is:  Idea  The words for a topic would tend to co-occur.  Given a list of words, the more often the words co-occur, than the better the list is as a definition of a topic.  Note:  Score decreases with M.  Topics be compared should be described using the same number of words Measure of Topic Quality D. Mimno, H. M. Wallach, E. Talley, M. Leenders, and A. McCallum. Optimizing semantic coherence in topic models. In Proceedings of the Conference on Empirical Methods in Natural Language Processing, pages 262–272, 2011.

AAAI 2014 Tutorial Nevin L. Zhang HKUST42  HLTA (L3-L4): All non-background topics from Levels 3 and 4: 47  HLTA (L2-L3-L4): All non-background topics from Levels 2, 3 and 4: 140  LDA was instructed to find two sets of topics with 47 and140 topics  HLDA found more 179.  HLDA-s: A subset of the HLDA topics were sampled for fair comparison. HLTA Found More Coherent Topics than LDA and HLDA

AAAI 2014 Tutorial Nevin L. Zhang HKUST43  Regard LDA, HLDA and HLTA as methods for text modeling  Build a probabilistic model for the corpus  Evaluation:  Per-document held-out loglikelihood (-log(perplexity)).  Measure performance of model on predicting unseen data  Data:  NIPS: 1,740 papers from NIPS, 1,000 words,  JACM: 536 abstracts from J of ACM, 1,809 words.  NEWSGROUP: 20,000 newsgroup posts, 1,000 words. Comparisons in Terms of Model Fit

 HLTA results robust w.r.t UD-test threshold  The values 1, 3, 5 are from literature on Bayes factor (see Part III)  LDA produced by far worst models in all cases.  HLTA out-performed HLDA on NIPS, tied on JACP, and beaten on Newsgroup  Caution: Better model does not implies better topics  Running time on NIPS:  LDA – 3.6 hours, HLTA – 17 hours, HLDA – 68 hours.

AAAI 2014 Tutorial Nevin L. Zhang HKUST45  HLTA  Topic: collection of documents  Have sizes  Characterization: Words occur with high probability in topic, low probability in other documents  Document: A member of topic, can belong to multiple topics with probability 1. Summary  LDA, HLDA  Topic: Distribution over vocabulary  Don’t have sizes  Characterization: Words occur with high probability in topic  Document: A mixture of topics  HLTA produces better hierarchy than HLDA  HLTA produce more coherent topics than LDA and HLDA

AAAI 2014 Tutorial Nevin L. Zhang HKUST46 Part III: Applications  Approximate Inference in Bayesian networks  Analysis of social survey data  Topic detection  Analysis of medical symptom survey data  Software

AAAI 2014 Tutorial Nevin L. Zhang HKUST47 Background of Research  Common practice in China, increasingly in Western world  Patients of a WM disease divided into several TCM classes  Different classes are treated differently using TCM treatments.  Example:  WM disease: Depression  TCM Classes:  Liver-Qi Stagnation (肝气郁结). Treatment principle: 疏肝解郁， Prescription: 柴胡疏肝散  Deficiency of Liver Yin and Kidney Yin (肝肾阴虚)：Treatment principle: 滋肾养 肝， Prescription: 逍遥散合六味地黄丸  Vacuity of both heart and spleen (心脾两虚). Treatment principle: 益气健脾, Prescription: 归脾汤  …. Page 47

AAAI 2014 Tutorial Nevin L. Zhang HKUST48 Key Question  How should patients of a WM disease be divided into subclasses from the TCM perspective?  What TCM classes?  What are the characteristics of each TCM class?  How to differentiate different TCM classes?  Important for  Clinic practice  Research  Randomized controlled trials for efficacy  Modern biomedical understanding of TCM concepts  No consensus. Different doctors/researchers use different schemes. Key weakness of TCM. Page 48

AAAI 2014 Tutorial Nevin L. Zhang HKUST49 Key Idea  Our objective:  Provide an evidence-based method for TCM patient classification  Key Idea  Cluster analysis of symptom data => empirical partition of patients  Check to see whether it corresponds to TCM class concept  Key technology: Multidimensional clustering  Motivation for developing latent tree analysis Page 49

AAAI 2014 Tutorial Nevin L. Zhang HKUST50 Symptoms Data of Depressive Patients  Subjects:  604 depressive patients aged between 19 and 69 from 9 hospitals  Selected using the Chinese classification of mental disorder clinic guideline CCMD-3  Exclusion:  Subjects we took anti-depression drugs within two weeks prior to the survey; women in the gestational and suckling periods,.. etc  Symptom variables  From the TCM literature on depression between 1994 and 2004.  Searched with the phrase “抑郁 and 证” on the CNKI (China National Knowledge Infrastructure) data  Kept only those on studies where patients were selected using the ICD-9, ICD-10, CCMD-2, or CCMD-3 guidelines.  143 symptoms reported in those studies altogether. Page 50 (Zhao et al. JACM 2014)

AAAI 2014 Tutorial Nevin L. Zhang HKUST51 The Depression Data  Data as a table  604 rows, each for a patient  143 columns, each for a symptom  Table cells: 0 – symptom not present, 1 – symptom present  Removed: Symptoms occurring <10 times  86 symptoms variables entered latent tree analysis.  Structure of the latent tree model obtained on the next two slides. Page 51

AAAI 2014 Tutorial Nevin L. Zhang HKUST52 Model Obtained for a Depression Data (Top) Page 52

AAAI 2014 Tutorial Nevin L. Zhang HKUST53 Model obtained for a Depression Data (Bottom) Page 53

AAAI 2014 Tutorial Nevin L. Zhang HKUST54 The Empirical Partitions Page 54  The first cluster (Y 29 = s 0 ) consists of 54% of the patients and while the cluster (Y 29 = s 1 ) consists of 46% of the patients.  The two symptoms ‘fear of cold’ and ‘cold limbs’ do not occur often in the first cluster  While they both tend to occur with high probabilities (0.8 and 0.85) in the second cluster.

AAAI 2014 Tutorial Nevin L. Zhang HKUST55 Probabilistic Symptom co-occurrence pattern  Probabilistic symptom co-occurrence pattern:  The table indicates that the two symptoms ‘fear of cold’ and ‘cold limbs’ tend to co-occur in the cluster Y 29 = s 1  Pattern meaningful from the TCM perspective.  TCM asserts that YANG DEFICIENCY (阳虚) can lead to, among other symptoms, ‘fear of cold’ and ‘cold limbs’  So, the co-occurrence pattern suggests the TCM symdrome type （证型） YANG DEFICIENCY (阳虚). Page 55 l The partition Y 29 suggests that n Among depressive patients, there is a subclass of patient with YANG DEFICIENCY. n In this subclass, ‘fear of cold’ and ‘cold limbs’ co-occur with high probabilities (0.8 and 0.85)

AAAI 2014 Tutorial Nevin L. Zhang HKUST56 Probabilistic Symptom co-occurrence pattern Page 56  Y 28 = s 1 captures the probabilistic co-occurrence of ‘aching lumbus’, ‘lumbar pain like pressure’ and ‘lumbar pain like warmth’.  This pattern is present in 27% of the patients.  It suggests that  Among depressive patients, there is a subclass that correspond to the TCM concept of KIDNEY DEPRIVED OF NOURISHMENT (肾虚失养)  Characteristics of the subclass given by distributions for Y 28 = s 1

AAAI 2014 Tutorial Nevin L. Zhang HKUST57 Probabilistic Symptom co-occurrence pattern  Y 27 = s 1 captures the probabilistic co-occurrence of ‘weak lumbus and knees’ and ‘cumbersome limbs’.  This pattern is present in 44% of the patients  It suggests that,  Among depressive patients, there is a subclass that correspond to the TCM concept of KIDNEY DEFICIENCY （肾虚）  Characteristics of the subclass given by distributions for Y 27 = s 1  Y27, Y28, Y29 together provide evidence for defining KIDNEY YANG DEFICIENCY

AAAI 2014 Tutorial Nevin L. Zhang HKUST58 Probabilistic Symptom co-occurrence pattern  Pattern Y 21 = s 1 : evidence for defining STAGNANT QI TURNING INTO FIRE （气郁化火）  Y 15 = s 1 : evidence for defining QI DEFICIENCY  Y 17 = s 1 : evidence for defining HEART QI DEFICIENCY  Y 16 = s 1 : evidence for defining QI STAGNATION  Y 19 = s 1 : evidence for defining QI STAGNATION IN HEAD Page 58

AAAI 2014 Tutorial Nevin L. Zhang HKUST59 Probabilistic Symptom co-occurrence pattern  Y 9 = s 1 :evidence for defining DEFICIENCY OF BOTH QI AND YIN (气阴两虚)  Y 10 = s 1 : evidence for defining YIN DEFICIENCY (阴虚)  Y 11 = s 1 : evidence for defining DEFICIENCY OF STOMACH/SPLEEN YIN (脾胃 阴虚) Page 59

AAAI 2014 Tutorial Nevin L. Zhang HKUST60 Symptom Mutual-Exclusion Patterns  Some empirical partitions reveal symptom exclusion patterns  Y 1 reveals the mutual exclusion of ‘white tongue coating’, ‘yellow tongue coating’ and ‘yellow-white tongue coating’  Y 2 reveals the mutual exclusion of ‘thin tongue coating’, ‘thick tongue coating’ and ‘little tongue coating’. Page 60

AAAI 2014 Tutorial Nevin L. Zhang HKUST61 Summary of TCM Data Analysis  By analyzing 604 cases of depressive patient data using latent tree models we have discovered a host of probabilistic symptom co-occurrence patterns and symptom mutual-exclusion patterns.  Most of the co-occurrence patterns have clear TCM syndrome connotations, while the mutual-exclusion patterns are also reasonable and meaningful.  The patterns can be used as evidence for the task of defining TCM classes in the context of depressive patients and for differentiating between those classes. Page 61

AAAI 2014 Tutorial Nevin L. Zhang HKUST62 Another Perspective: Statistical Validation of TCM Postulates Page 62 (Zhang et al. JACM 2008) Yang Deficiency Y29 = s1 Kidney deprived of nourishment Y28 = s1  TCM terms such as Yang Deficiency were introduced to explain symptom co- occurrence patterns observed in clinic practice. …..

AAAI 2014 Tutorial Nevin L. Zhang HKUST63 Value of Work in View of Others  D. Haughton and J. Haughton. Living Standards Analytics: Development through the Lens of Household Survey Data. Springer. 2012  Zhang et al. provide a very interesting application of latent class (tree) models to diagnoses in traditional Chinese medicine (TCM).  The results tend to confirm known theories in Chinese traditional medicine.  This is a significant advance, since the scientific bases for these theories are not known.  The model proposed by the authors provides at least a statistical justification for them. Page 63

AAAI 2014 Tutorial Nevin L. Zhang HKUST64 Part III: Applications  Approximate Inference in Bayesian networks  Analysis of social survey data  Topic detection  Analysis of medical symptom survey data  Software

AAAI 2014 Tutorial Nevin L. Zhang HKUST65  http://www.cse.ust.hk/faculty/lzhang/ltm/index.htm http://www.cse.ust.hk/faculty/lzhang/ltm/index.htm  Implementation of LTM learning algorithms: EAST, BI  Tool for manipulate LTMs: Lantern  LTM for topic detection: HLTA  Implementation of other LTM learning algorithms  BIN-A, BIN-G, CL and LCM: http://people.kyb.tuebingen.mpg.de/harmeling/code/ltt-1.4.tar  CFHLC: https://sites.google.com/site/raphaelmouradeng/home/programs  NJ, RG, CLRG and regCLRG: http://people.csail.mit.edu/myungjin/latentTree.html  − NJ (fast implementation): http://nimbletwist.com/software/ninja Software

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