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1.

図書
図書
1. Biodata mining and visualization : novel approaches (: hbk.)
Ilkka Havukkala
出版情報: Singapore : World Scientific, c2010  xv, 307 p. ; 24 cm
シリーズ名: Science, engineering, and biology informatics ; v. 5
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目次情報: 続きを見る
Preface
Acknowledgement
About the Author
Introduction to Modern Molecular Biology / 1：
Cells store large amounts of information in DNA / 1.1：
Cells process complex information / 1.2：
Cellular life is chemically complex and somewhat stochastic / 1.3：
Challenges in analyzing complex biodata / 1.4：
References
Biodata Explosion / 2：
Primary sequence and structure data / 2.1：
DNA sequence databases / 2.1.1：
Protein sequence databases / 2.1.2：
Molecular structure databases / 2.1.3：
Secondary annotation data / 2.2：
Motif annotations / 2.2.1：
Gene function annotations / 2.2.2：
Genomic annotations / 2.2.3：
Inter-species phylogeny and gene family annotations / 2.2.4：
Experimental and personalized data / 2.3：
DNA expression profiles / 2.3.1：
Proteomics data and degradomics / 2.3.2：
Protein expression profiles, 2D gel and protein interaction data / 2.3.3：
Metabolomics and metabolic pathway databases / 2.3.4：
Personalized data / 2.3.5：
Semantic and processed text data / 2.4：
Ontologies / 2.4.1：
Text-mined annotation data / 2.4.2：
Integrated and federated databases / 2.5：
Local Pattern Discovery and Comparing Genes and Proteins / 3：
DNA/RNA motif discovery / 3.1：
Single motif models: MEME, AlignAce etc. / 3.1.1：
Multiple motif models: LOGOS and MotifRegressor / 3.1.2：
Informative k-mers approach / 3.1.3：
Protein motif discovery / 3.2：
InterProScan and other traditional methods / 3.2.1：
Protein k-mer and other string based methods / 3.2.2：
Genetic algorithms, particle swarms and ant colonies / 3.3：
Genetic algorithms / 3.3.1：
Particle swarm optimization / 3.3.2：
Ant colony optimization / 3.3.3：
Sequence visualization / 3.4：
Global Pattern Discovery and Comparing Genomes / 4：
Alignment-based methods / 4.1：
Pairwise genome-wide search algorithms: LAGAN, AVID etc. / 4.1.1：
Multiple alignment methods: MLAGAN, MAVID, MULTIZ etc. / 4.1.2：
Dotplots / 4.1.3：
Visualization of genome comparisons / 4.1.4：
Global motif maps / 4.1.5：
Alignmentless methods / 4.2：
K-mer based methods / 4.2.1：
Average common substring and compressibility based methods / 4.2.2：
2D portraits of genomes / 4.2.3：
Genome scale non-sequence data analysis / 4.3：
DNA physical structure based methods / 4.3.1：
Secondary structure based comparisons / 4.3.2：
Molecule Structure Based Searching and Comparison / 5：
Molecule structures as graphs or strings / 5.1：
3D to 1D transformations / 5.1.1：
Graph matching methods / 5.1.2：
Graph visualization / 5.1.3：
Graph grammars / 5.1.4：
RNA structure comparison and prediction / 5.2：
Image comparison based methods / 5.3：
Gabor filter based methods / 5.3.1：
Image symmetry set based methods / 5.3.2：
Other graph topology based methods / 5.3.3：
Function Annotation and Ontology Based Searching and Classification / 6：
Annotation ontologies / 6.1：
Gene Ontology based mining / 6.2：
Sequence similarity based function prediction / 6.3：
Cellular location prediction / 6.4：
New integrative methods: Utilizing networks / 6.5：
Text mining bioliterature for automated annotation / 6.6：
Natural language processing (NLP) / 6.6.1：
Semantic profiling / 6.6.2：
Matrix factorization methods / 6.6.3：
New Methods for Genomics Data: SVM and Others / 7：
SVM kernels / 7.1：
SVM trees / 7.2：
Methods for microarray data / 7.3：
Gene selection algorithms / 7.3.1：
Gene selection by consistency methods / 7.3.2：
Genome as a time series and discrete wavelet transform / 7.4：
Parameterless clustering for gene expression / 7.5：
Transductive confidence machines, conformal predictors and ROC isometrics / 7.6：
Text compression methods for biodata analysis / 7.7：
Integration of Multimodal Data: Toward Systems Biology / 8：
Comparative genome annotation systems / 8.1：
Phylogenetics methods / 8.2：
Network inference from interaction and coexpression data / 8.3：
Bayesian inference, association rule mining and Petri nets / 8.4：
Future Challenges / 9：
Network analysis methods / 9.1：
Unsupervised and supervised clustering / 9.2：
Neural networks and evolutionary methods / 9.3：
Semantic web and ontologization of biology / 9.4：
Biological data fusion / 9.5：
Rise of the GPU machines / 9.6：
Index
Preface
Acknowledgement
About the Author
2.

図書
図書
2. Knowledge and information visualization : searching for synergies
Sigmar-Olaf Tergan, Tanja Keller (eds.)
出版情報: Berlin : Springer, c2005  viii, 384 p. ; 24 cm
シリーズ名: Lecture notes in computer science ; 3426
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3.

図書
図書
3. Beautiful visualization. 1st ed
edited by Julie Steele and Noah Iliinsky
出版情報: Sebastopol, CA ; Tokyo : O'Reilly, 2010  xvi, 397 p. ; 24 cm
シリーズ名: Theory in practice
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On beauty / Noah Iliinsky
Once upon a stacked time series: the importance of storytelling in information visualization / Matthias Shapiro
Wordle / Jonathan Feinberg
Color: the Cinderella of data visualization / Michael Driscoll
Mapping information: redesigning the New York City subway map / Eddie Jabbour, as told to Julie Steele
Flight patterns: a deep dive / Aaron Koblin with Valdean Klump
Your choices reveal who you are: mining and visualizing social patterns / Valdis Krebs
Visualizing the U.S. Senate social graph (1991-2009) / Andrew Odewahn
The big picture: search and discovery / Todd Holloway
Finding beautiful insights in the chaos of social network visualizations / Adam Perer
Beautiful history: visualizing Wikipedia / Martin Wattenberg and Fernanda Viégas
Turning a table into a tree: growing parallel sets into a purposeful project / Robert Kosara
The design of "X by Y" / Moritz Stefaner
Revealing matrices / Maximilian Schich
This was 1994: data exploration with the NYTimes article search API / Jer Thorp
A day in the life of the New York Times / Michael Young and Nick Bilton
Immersed in unfolding complex systems / Lance Putnam ... [et al.]
Postmortem visualization: the real gold standard / Anders Persson
Animation for visualization: oppotunities and drawbacks / Danyel Fisher
Visualization: indexed. / Jessica Hagy
On beauty / Noah Iliinsky
Once upon a stacked time series: the importance of storytelling in information visualization / Matthias Shapiro
Wordle / Jonathan Feinberg
4.

図書
図書
4. Information visualization : perception for design. 3rd ed
Colin Ware
出版情報: Amsterdam : Morgan Kaufmann is an imprint of Elsevier, c2013  xx, 512 p. ; 25 cm
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Foundations for an Applied Science of Data Visualization / Chapter 1：
The Environment, Optics, Resolution, and the Display / Chapter 2：
Lightness, Brightness, Contrast and Constancy / Chapter 3：
Color / Chapter 4：
Visual Salience and Finding Information / Chapter 5：
Static and Moving Patterns / Chapter 6：
Space Perception / Chapter 7：
Visual Objects and Data Objects / Chapter 8：
Images, Narrative, and Gestures for Explanation / Chapter 9：
Interacting with Visualizations / Chapter 10：
Visual Thinking Processes / Chapter 11：
Foundations for an Applied Science of Data Visualization / Chapter 1：
The Environment, Optics, Resolution, and the Display / Chapter 2：
Lightness, Brightness, Contrast and Constancy / Chapter 3：
5.

図書
図書
5. Data visualization with Python and JavaScript : scrape, clean, explore & transform your data. 1st ed
Kyran Dale
出版情報: Sebastopol, Calif. : O'Reilly, 2016  xxxiii, 553 p. ; 23 cm
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6.

図書
図書
6. Information visualization : perception for design. 4th ed (: pbk)
Colin Ware
出版情報: Cambridge, Mass. : Morgan Kaufmann, an imprint of Elsevier, c2021  xviii, 538 p. ; 24 cm
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7.

電子ブック
ＥＢ
7. Mobile data visualization (: electronic bk)
edited by Bongshin Lee ... [et al.]
出版情報: Taylor & Francis eBooks  1 online resource (xxiv, 321 p.)
シリーズ名: AK Peters visualization series ;
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8.

図書
図書
8. Communicating with data visualisation : a practical guide (: [Hardcover])
Adam Frost, Tobias Sturt, Jim Kynvin, Sergio Gallardo
出版情報: London : SAGE, c2022  352 p. ; 26 cm
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9.

図書
図書
9. Visual thinking for information design. 2nd ed (: [pbk.])
Colin Ware
出版情報: Amsterdam : Morgan Kaufmann, c2022  xi, 212 p. ; 24 cm
シリーズ名: The Morgan Kaufmann series in interactive technologies
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