PDF电子书：Bioinformatics for Omics Data. Methods and Protocols (Humana Press, 2

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Bioinformatics for Omics Data4 E7 ]0 L, v# M  p3 J
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Methods and Protocols
6 G+ X# ?/ \! v/ wSeries: Methods in Molecular Biology, Vol. 719. G, S1 ]" h' _0 L& N* k2 m% t$ O8 [
Mayer, Bernd (Ed.)
" c7 N- w" X0 v& i5 Z/ m! Z) C2011, XII, 584p. 90 illus., 2 illus. in color.
! s( R, y. H! Z; x8 x' fA product of Humana Press
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& u7 u# t' j0 o- P8 _' M2 JPart I Omics Bioi nformatics Fundamentals
8 H: L+ ^, N: ^1 Omics Technologies, Data and Bioinformatics Principles . .         3
4 ^( N0 z* R9 X/ e7 l& MMaria V. Schneider and Sandra Orchard
& b5 H3 T" }/ C6 g$ V* B: b2 Data Standards for Omics Data: The Basis of Data Sharing and Reuse . . . . .         31/ k# O  c. U9 a0 `& ^1 m" C
Stephen A. Chervitz, Eric W. Deutsch, Dawn Field, Helen Parkinson,
" L' c- z7 W$ {" M" ~John Quackenbush, Phillipe Rocca-Serra, Susanna-Assunta Sansone,4 r% t. N( B5 @1 m0 L* V# |1 Y
Christian J. Stoeckert, Jr., Chris F. Taylor, Ronald Taylor,
7 u5 G% d7 ]. @, Dand Catherine A. Ball
$ c( v6 k& |& X9 G; @3 Omics Data Management and Annotation . . . . . . . . . . . . . . . . . . . . . .         717 U( l( ]: g& ^$ \% |
Arye Harel, Irina Dalah, Shmuel Pietrokovski, Marilyn Safran,
! ]" T* A" d9 x8 S4 V1 t& Uand Doron Lancet! y6 @6 [0 M( C; ?: W
4 Data and Knowledge Management in Cross-Omics Research Projects . . . . .         97
, ~) z7 p4 |2 X" ~Martin Wiesinger, Martin Haiduk, Marco Behr, Henrique Lopes de
  ~+ Y" ~( `7 k6 ]- A% d$ W# DAbreu Madeira, Gernot Glöckler, Paul Perco, and Arno Lukas
0 z8 y5 B$ o2 j2 D: w8 |; C4 o5 Statistical Analysis Principles for Omics Data . . . . .         113* X; h& M+ u, k
Daniela Dunkler, Fátima Sánchez-Cabo, and Georg Heinze
+ M8 z; ^, H0 [4 v' {% T  C2 K6 Statistical Methods and Models for Bridging Omics Data Levels . . . . . .         133
4 L& ?* g6 j$ R% ?; q: ?* e) cSimon Rogers
: D, ]5 R# L! ?( h7 Analysis of Time Course Omics Datasets . . . . . .         153
4 T! q( z  m. ~2 B! a+ DMartin G. Grigorov
* _1 r5 u: y/ X8 @1 \% U; p8 The Use and Abuse of -Omes . . . . . . . .         173
' k  r( e. }2 m: {2 [Sonja J. Prohaska and Peter F. Stadler
0 w8 f( m; E4 WPart II Omics Data and Analysis Tracks
+ j7 a" _3 q7 a, I$ |9 O6 {6 C* A) ?9 Computational Analysis of High Throughput Sequencing Data . . . . . . . . . . . . . .         199
1 c: G6 I2 d1 @! sSteve Hoffmann
- _4 ]  A5 H5 U! M% p3 W5 T( @10 Analysis of Single Nucleotide Polymorphisms in Case–Control Studies . . . . .         219
( |& x$ |+ k. I' P8 xYonghong Li, Dov Shiffman, and Rainer Oberbauer
5 l6 P0 H# z8 `% w% ]& a11 Bioinformatics for Copy Number Variation Data . . . . . . . . . . . . . . . . . . . . . . . .         235
2 _) Z  I2 P9 \& bMelissa Warden, Roger Pique-Regi, Antonio Ortega,
/ ~* D9 c2 l, r) cand Shahab Asgharzadeh
; _- Y: i6 h# ~& t12 Processing ChIP-Chip Data: From the Scanner to the Browser . . . . . . . .         2518 I4 Q1 Y! s  O: ^" k  P) U/ ^
Pierre Cauchy, Touati Benoukraf, and Pierre Ferrier# @/ D4 g4 a8 ?0 ^
13 Insights Into Global Mechanisms and Disease by Gene Expression Profiling . . .         2699 F$ x+ @4 l+ A* P1 P: K/ [0 s6 @
Fátima Sánchez-Cabo, Johannes Rainer, Ana Dopazo,
2 B# ~8 K1 v+ D5 Y0 F# QZlatko Trajanoski, and Hubert Hackl  g4 b$ a2 @0 s+ g" u
14 Bioinformatics for RNomics . . . .         299
* t: P5 I. g' Z+ T3 r# bKristin Reiche, Katharina Schutt, Kerstin Boll,
3 b) i8 `. C& J, T" R5 mFriedemann Horn, and Jörg Hackermüller
9 f% L3 c6 T, B. }1 c7 I15 Bioinformatics for Qualitative and Quantitative Proteomics . . . . . . . . . . . . . . . .         331
! ~0 V& s/ R: V1 GChris Bielow, Clemens Gröpl, Oliver Kohlbacher, and Knut Reinert
8 q6 S* U1 R: E7 q9 W16 Bioinformatics for Mass Spectrometry-Based Metabolomics . . . . . . . . . . . . . . . . .         351
- j3 C. a$ S" D$ V  V' I/ z7 }David P. Enot, Bernd Haas, and Klaus M. Weinberger
0 B' S5 w* a% d# zPart III A pp lied Omics Bioi nformatics+ G4 q- A) y! W0 Q
17 Computational Analysis Workflows for Omics Data Interpretation . .         379
! K9 L3 e2 ^9 ~3 R) ~Irmgard Mühlberger, Julia Wilflingseder, Andreas Bernthaler,; `+ k# u6 J# J1 Z
Raul Fechete, Arno Lukas, and Paul Perco" i; H, z  Q0 `0 i
18 Integration, Warehousing, and Analysis Strategies of Omics Data . . . . . . . . . . . . . 399
' `! p' J1 c, I  k7 s8 tSrinubabu Gedela6 x7 M/ ^3 ?- g5 ^
19 Integrating Omics Data for Signaling Pathways, Interactome Reconstruction,
* @: T+ e9 w. yand Functional Analysis . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . .         4151 ?4 Y  e- S  X" Z& @8 z( T
Paolo Tieri, Alberto de la Fuente, Alberto Termanini,3 q( o& p) S% n2 I! D8 ]5 X
and Claudio Franceschi% U8 ?; O5 b% x9 v4 X
20 Network Inference from Time-Dependent Omics Data . . . . . . . . . . . . . . . . . .         435) M; ^- R" E" a2 Q* e! W$ [3 R9 m
Paola Lecca, Thanh-Phuong Nguyen, Corrado Priami, and Paola Quaglia
. d- D" _  S( y( k) p. R* \21 Omics and Literature Mining . . . . . . . . . . . .         457
9 h) z- L8 H: c8 W8 K7 q6 j1 i& SVinod Kumar
$ t7 S* j7 w1 n# ~) I/ H, P22 Omics–Bioinformatics in the Context of Clinical Data . . . . . . . . . . . . . . . . . . .         479' y6 S* X& [9 J) u: z
Gert Mayer, Georg Heinze, Harald Mischak, Merel E. Hellemons,  ~+ w0 K" {; x
Hiddo J. Lambers Heerspink, Stephan J.L. Bakker, Dick de Zeeuw,2 A/ {* F' c% X. u
Martin Haiduk, Peter Rossing, and Rainer Oberbauer
4 z- _- m; e; R! R9 ]9 ^23 Omics-Based Identification of Pathophysiological Processes . . . . . . . . . . . . . . . . .         499! b9 [# J. [0 T8 }4 _
Hiroshi Tanaka and Soichi Ogishima& [& `3 l/ b7 p7 g) E# O9 q) q
24 Data Mining Methods in Omics-Based Biomarker Discovery . . . . . . . . . . . . . . . .         5113 ^/ I- z! ~. V7 W
Fan Zhang and Jake Y. Chen! z$ Z5 v# E: x; z* |4 I1 C; J
25 Integrated Bioinformatics Analysis for Cancer Target Identification . . . . . . . . . . .         527
3 i0 a& R0 V2 e* P% m* X! eYongliang Yang, S. James Adelstein, and Amin I. Kassis$ V& Z* v# c: c6 a1 j- l9 L! X
26 Omics-Based Molecular Target and Biomarker Identification . . . . . . . . . . . . . . .         547
, W' {0 j  Z9 z1 i2 b, P& rZgang–Zhi Hu, Hongzhan Huang, Cathy H. Wu, Mira Jung,0 V0 D2 d8 l- [' ^# ?  u9 V
Anatoly Dritschilo, Anna T. Riegel, and Anton Wellstein! J+ I! e+ V, S3 F$ D, v3 ]; V
Index . . . . . . . . 5731 z% g9 Z$ ^- x/ Q6 U
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