Volume 9; Issue 7

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Molecular BioSystems
Volume 9; Issue 7

Molecular BioSystems

Volume 9; Issue 7

1

Building synthetic gene circuits from combinatorial libraries: screening and selection strategies

Schaerli, Yolanda, Isalan, Mark

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 1.75 MB

english, 2013

2

A disease-drug-phenotype matrix inferred by walking on a functional domain network

Fang, Hai, Gough, Julian

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 3.05 MB

english, 2013

3

Predicting cancer drug mechanisms of action using molecular network signatures

Pritchard, Justin R., Bruno, Peter M., Hemann, Michael T., Lauffenburger, Douglas A.

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 5.20 MB

english, 2013

4

Finding the targets of a drug by integration of gene expression data with a protein interaction network

Laenen, Griet, Thorrez, Lieven, Börnigen, Daniela, Moreau, Yves

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 1.74 MB

english, 2013

5

Large-scale metabolome analysis and quantitative integration with genomics and proteomics data in Mycoplasma pneumoniae

Maier, Tobias, Marcos, Josep, Wodke, Judith A. H., Paetzold, Bernhard, Liebeke, Manuel, Gutiérrez-Gallego, Ricardo, Serrano, Luis

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 2.54 MB

english, 2013

6

Oligomerisation status and evolutionary conservation of interfaces of protein structural domain superfamilies

Sukhwal, Anshul, Sowdhamini, Ramanathan

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 3.31 MB

english, 2013

7

Urea in aqueous solution studied by quantum mechanical charge field-molecular dynamics (QMCF-MD)

Weiss, Alexander K. H., Hofer, Thomas S.

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 5.78 MB

english, 2013

8

Genome-scale reconstruction and in silico analysis of Aspergillus terreus metabolism

Liu, Jie, Gao, Qian, Xu, Nan, Liu, Liming

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 1.61 MB

english, 2013

9

Graphical modelling of molecular networks underlying sporadic inclusion body myositis

Thorne, Thomas, Fratta, Pietro, Hanna, Michael G., Cortese, Andrea, Plagnol, Vincent, Fisher, Elizabeth M., Stumpf, Michael P. H.

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 828 KB

english, 2013

10

DNA thermodynamic stability and supercoil dynamics determine the gene expression program during the bacterial growth cycle

Sobetzko, Patrick, Glinkowska, Monika, Travers, Andrew, Muskhelishvili, Georgi

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 2.98 MB

english, 2013

11

Identification of calcium binding sites on calsequestrin 1 and their implications for polymerization

Kumar, Amit, Chakravarty, Harapriya, Bal, Naresh C., Balaraju, Tuniki, Jena, Nivedita, Misra, Gauri, Bal, Chandralata, Pieroni, Enrico, Periasamy, Muthu, Sharon, Ashoke

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 2.48 MB

english, 2013

12

Transcriptional feedback in the insulin signalling pathway modulates ageing in both Caenorhabditis elegans and Drosophila melanogaster

Ivanov, Dobril K., Papatheodorou, Irene, Ziehm, Matthias, Thornton, Janet M.

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 4.78 MB

english, 2013

13

Human cathelicidin peptide LL37 binds telomeric G-quadruplex

Jana, Jagannath, Kar, Rajiv Kumar, Ghosh, Anirban, Biswas, Atanu, Ghosh, Surajit, Bhunia, Anirban, Chatterjee, Subhrangsu

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 1.64 MB

english, 2013

14

Social networks to biological networks: systems biology of Mycobacterium tuberculosis

Vashisht, Rohit, Bhardwaj, Anshu, OSDD Consortium,, Brahmachari, Samir K.

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 2.54 MB

english, 2013

15

Transcripts for combined synthetic microRNA and gene delivery

Kashyap, Neha, Pham, Bich, Xie, Zhen, Bleris, Leonidas

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 2.78 MB

english, 2013

16

Comparative analyses of stress-responsive genes in Arabidopsis thaliana: insight from genomic data mining, functional enrichment, pathway analysis and phenomics

Naika, Mahantesha, Shameer, Khader, Sowdhamini, Ramanathan

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 23.94 MB

english, 2013

17

A study of Caenorhabditis elegans DAF-2 mutants by metabolomics and differential correlation networks

Castro, Cecilia, Krumsiek, Jan, Lehrbach, Nicolas J., Murfitt, Steven A., Miska, Eric A., Griffin, Julian L.

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 3.16 MB

english, 2013

18

Understanding traditional Chinese medicine anti-inflammatory herbal formulae by simulating their regulatory functions in the human arachidonic acid metabolic network

Gu, Shuo, Yin, Ning, Pei, Jianfeng, Lai, Luhua

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 1.49 MB

english, 2013

19

Regulation of protein–protein binding by coupling between phosphorylation and intrinsic disorder: analysis of human protein complexes

Nishi, Hafumi, Fong, Jessica H., Chang, Christiana, Teichmann, Sarah A., Panchenko, Anna R.

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 1.55 MB

english, 2013

20

Structural comparison of biological networks based on dominant vertices

Luna, Beatriz, Galán-Vásquez, Edgardo, Ugalde, Edgardo, Martínez-Antonio, Agustino

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 1.75 MB

english, 2013

21

Sirtuin 6: a review of biological effects and potential therapeutic properties

Beauharnois, Jade M., Bolívar, Beatriz E., Welch, John T.

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 3.01 MB

english, 2013

22

Network Biology editorial 2013

Marcotte, Edward, Boone, Charles, Babu, M. Madan, Gavin, Anne-Claude

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 938 KB

english, 2013

23

iPoint: an integer programming based algorithm for inferring protein subnetworks

Atias, Nir, Sharan, Roded

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 1.50 MB

english, 2013

24

MGclus: network clustering employing shared neighbors

Frings, Oliver, Alexeyenko, Andrey, Sonnhammer, Erik L. L.

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 1.59 MB

english, 2013

25

Inferring pathway crosstalk networks using gene set co-expression signatures

Wang, Ting, Gu, Jin, Yuan, Jun, Tao, Ran, Li, Yanda, Li, Shao

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 2.41 MB

english, 2013

26

Network function shapes network structure: the case of the Arabidopsis flower organ specification genetic network

Henry, Adrien, Monéger, Françoise, Samal, Areejit, Martin, Olivier C.

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 2.21 MB

english, 2013

27

PheNetic: network-based interpretation of unstructured gene lists in E. coli

De Maeyer, Dries, Renkens, Joris, Cloots, Lore, De Raedt, Luc, Marchal, Kathleen

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 2.15 MB

english, 2013

28

Tethering preferences of domain families co-occurring in multi-domain proteins

Mohanty, Smita, Purwar, Mansi, Srinivasan, Naryanaswamy, Rekha, Nambudiry

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 3.85 MB

english, 2013

29

Influence of PNA containing 8-aza-7-deazaadenine on structure stability and binding affinity of PNA·DNA duplex: insights from thermodynamics, counter ion, hydration and molecular dynamics analysis

Gupta, Sharad K., Sur, Souvik, Prasad Ojha, Rajendra, Tandon, Vibha

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 2.40 MB

english, 2013

30

Exploring higher-order EGFR oligomerisation and phosphorylation—a combined experimental and theoretical approach

Kozer, Noga, Barua, Dipak, Orchard, Suzanne, Nice, Eduoard C., Burgess, Antony W., Hlavacek, William S., Clayton, Andrew H. A.

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 2.35 MB

english, 2013

31

Genomics and proteomics in solving brain complexity

Kadakkuzha, Beena M., Puthanveettil, Sathyanarayanan V.

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 2.33 MB

english, 2013

32

Quantifying the similarity of monotonic trajectories in rough and smooth fitness landscapes

Lobkovsky, Alexander E., Wolf, Yuri I., Koonin, Eugene V.

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 1.68 MB

english, 2013

33

Bridging the layers: towards integration of signal transduction, regulation and metabolism into mathematical models

Gonçalves, Emanuel, Bucher, Joachim, Ryll, Anke, Niklas, Jens, Mauch, Klaus, Klamt, Steffen, Rocha, Miguel, Saez-Rodriguez, Julio

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 1.71 MB

english, 2013

34

Mechanism of action-based classification of antibiotics using high-content bacterial image analysis

Peach, Kelly C., Bray, Walter M., Winslow, Dustin, Linington, Peter F., Linington, Roger G.

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 3.02 MB

english, 2013

35

Glycoproteomic analysis of tissues from patients with colon cancer using lectin microarrays and nanoLC-MS/MS

Li, Yangguang, Wen, Ti, Zhu, Minzhi, Li, Lixin, Wei, Jun, Wu, Xiaoli, Guo, Mingzhou, Liu, Shuangping, Zhao, Huiyuan, Xia, Siyuan, Huang, Weili, Wang, Puyue, Wu, Zhenzhou, Zhao, Liqing, Shui, Wenqing,

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 2.15 MB

english, 2013

36

Front cover

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 1.82 MB

english, 2013

37

A methodology to infer gene networks from spatial patterns of expression – an application to fluorescence in situ hybridization images

Campiteli, Monica Guimarães, Comin, Cesar Henrique, Costa, Luciano da Fontoura, Babu, M. Madan, Cesar, Roberto Marcondes

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 1.54 MB

english, 2013

38

Emerging trends in G-quadruplex biology – role in epigenetic and evolutionary events

Baral, Aradhita, Kumar, Pankaj, Pathak, Rajiv, Chowdhury, Shantanu

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 2.28 MB

english, 2013

39

Contents list

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 5.07 MB

english, 2013

40

Stress induces remodelling of yeast interaction and co-expression networks

Lehtinen, Sonja, Marsellach, Francesc Xavier, Codlin, Sandra, Schmidt, Alexander, Clément-Ziza, Mathieu, Beyer, Andreas, Bähler, Jürg, Orengo, Christine, Pancaldi, Vera

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 2.54 MB

english, 2013

41

Back cover

Journal:

Molecular BioSystems

Year:

2013

File:

PDF, 2.20 MB

2013

42

Synthesizing oncogenic signal-processing systems that function as both “signal counters” and “signal blockers” in cancer cells

Liu, Yuchen, Huang, Weiren, Zhou, Dexi, Han, Yonghua, Duan, Yonggang, Zhang, Xiaoyue, Zhang, Hu, Jiang, Zhimao, Gui, Yaoting, Cai, Zhiming

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 2.54 MB

english, 2013

43

Network properties of decoys and CASP predicted models: a comparison with native protein structures

Chatterjee, S., Ghosh, S., Vishveshwara, S.

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 4.18 MB

english, 2013

44

Molecular recognition of sulfotyrosine and phosphotyrosine by the Src homology 2 domain

Ju, Tong, Niu, Wei, Cerny, Ronald, Bollman, Joshua, Roy, Anthony, Guo, Jiantao

Journal:

Molecular BioSystems

Year:

2013

Language:

english

File:

PDF, 1.32 MB

english, 2013

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