Author Archive

Top ten most accessed articles in June

This month sees the following articles in Molecular BioSystems that are in the top ten most accessed:

Optimized TAL effector nucleases (TALENs) for use in treatment of sickle cell disease
Ning Sun, Jing Liang, Zhanar Abil and Huimin Zhao
Mol. BioSyst., 2012, 8, 1255-1263
DOI: 10.1039/C2MB05461B

Global signatures of protein and mRNA expression levels
Raquel de Sousa Abreu, Luiz O. Penalva, Edward M. Marcotte and Christine Vogel
Mol. BioSyst., 2009, 5, 1512-1526
DOI: 10.1039/B908315D

Large scale phosphoproteome analysis of LNCaP human prostate cancer cells
Jae-Kyung Myung and Marianne D. Sadar
Mol. BioSyst., 2012, 8, 2174-2182
DOI: 10.1039/C2MB25151E

Small-molecule modulators of the Sonic Hedgehog signaling pathway
Benjamin Z. Stanton and Lee F. Peng
Mol. BioSyst., 2010, 6, 44-54
DOI: 10.1039/B910196A

Split-superpositive GFP reassembly is a fast, efficient, and robust method for detecting protein–protein interactions in vivo
Brett D. Blakeley, Alex M. Chapman and Brian R. McNaughton
Mol. BioSyst., 2012, 8, 2036-2040
DOI: 10.1039/C2MB25130B

Rewiring the dynamic interactome
Melissa J. Davis, Chang Jin Shin, Ning Jing and Mark A. Ragan
Mol. BioSyst., 2012, 8, 2054-2066
DOI: 10.1039/C2MB25050K

Engineering ecosystems and synthetic ecologies
Michael T. Mee and Harris H. Wang
Mol. BioSyst., 2012, Advance Article
DOI: 10.1039/C2MB25133G

Structural analysis of intrinsically disordered proteins by small-angle X-ray scattering
Pau Bernadó and Dmitri I. Svergun
Mol. BioSyst., 2012, 8, 151-167
DOI: 10.1039/C1MB05275F

Drug–target interaction prediction by random walk on the heterogeneous network
Xing Chen, Ming-Xi Liu and Gui-Ying Yan
Mol. BioSyst., 2012, 8, 1970-1978
DOI: 10.1039/C2MB00002D

LC-MS-based metabolomics
Bin Zhou, Jun Feng Xiao, Leepika Tuli and Habtom W. Ressom
Mol. BioSyst., 2012, 8, 470-481
DOI: 10.1039/C1MB05350G

Why not take a look at the articles today and blog your thoughts and comments below.

Fancy submitting an article to Molecular BioSystems? Then why not submit to us today or alternatively email us your suggestions.

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Top ten most accessed articles in May

This month sees the following articles in Molecular BioSystems that are in the top ten most accessed:

Optimized TAL effector nucleases (TALENs) for use in treatment of sickle cell disease
Ning Sun, Jing Liang, Zhanar Abil and Huimin Zhao
Mol. BioSyst., 2012, 8, 1255-1263
DOI: 10.1039/C2MB05461B

A novel zebrafish human tumor xenograft model validated for anti-cancer drug screening
Da-Woon Jung, Eun-Sang Oh, Si-Hwan Park, Young-Tae Chang, Cheol-Hee Kim, Seok-Yong Choi and Darren R. Williams
Mol. BioSyst., 2012, 8, 1930-1939
DOI: 10.1039/C2MB05501E

Structural analysis of intrinsically disordered proteins by small-angle X-ray scattering
Pau Bernadó and Dmitri I. Svergun
Mol. BioSyst., 2012, 8, 151-167
DOI: 10.1039/C1MB05275F

More than just tails: intrinsic disorder in histone proteins
Zhenling Peng, Marcin J. Mizianty, Bin Xue, Lukasz Kurgan and Vladimir N. Uversky
Mol. BioSyst., 2012, 8, 1886-1901
DOI: 10.1039/C2MB25102G

Modular recognition of nucleic acids by PUF, TALE and PPR proteins
Aleksandra Filipovska and Oliver Rackham
Mol. BioSyst., 2012, 8, 699-708
DOI: 10.1039/C2MB05392F

Proteome-wide detection of phospholipid–protein interactions in mitochondria by photocrosslinking and click chemistry
Jacob Gubbens and Anton I. P. M. de Kroon
Mol. BioSyst., 2010, 6, 1751-1759
DOI: 10.1039/C003064N

Multifunctional polymeric micelles with folate-mediated cancer cell targeting and pH-triggered drug releasing properties for active intracellular drug delivery
Younsoo Bae, Woo-Dong Jang, Nobuhiro Nishiyama, Shigeto Fukushima and Kazunori Kataoka
Mol. BioSyst., 2005, 1,242-250
DOI: 10.1039/B500266D

LC-MS-based metabolomics
Bin Zhou, Jun Feng Xiao, Leepika Tuli and Habtom W. Ressom
Mol. BioSyst., 2012, 8, 470-481
DOI: 10.1039/C1MB05350G

Synthetic antibodies as tools to probe RNA-binding protein function
John D. Laver, Kristin Ancevicius, Pietro Sollazzo, J. Timothy Westwood, Sachdev S. Sidhu, Howard D. Lipshitz and Craig A. Smibert
Mol. BioSyst., 2012, 8, 1650-1657
DOI: 10.1039/C2MB00007E

Rewiring and dosing of systems modules as a design approach for synthetic mammalian signaling networks
Michael M. Kämpf, Raphael Engesser, Moritz Busacker, Maximilian Hörner, Maria Karlsson, Matias D. Zurbriggen, Martin Fussenegger, Jens Timmer and Wilfried Weber
Mol. BioSyst., 2012, 8, 1824-1832
DOI: 10.1039/C2MB05509K

Why not take a look at the articles today and blog your thoughts and comments below.

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Schizophrenia: a disease of the brain?

Brain with question mark superimposed

The brain is usually considered as the most relevant organ of schizophrenia, but evidence suggests that peripheral tissues also contribute to the disease

Scientists in China have unearthed further evidence that a malfunction of the immune system contributes to the development of schizophrenia.

Schizophrenia is a severe mental illness, which affects around 1% of the world’s population. It is traditionally thought to be exclusively caused by problems in the brain. However, there is a growing body of evidence that suggests that the immune system has an important role to play.

Lin He and Chunling Wan from Shanghai Jiao Tong University, and their colleagues, identified over 1300 proteins in the blood and then compared the blood of schizophrenic patients with healthy blood using mass spectrometry. They found that 27 proteins were different in the schizophrenic patients and that all of these proteins were involved in the complement system.

See the full article in Chemistry World

Or read the Molecular BioSystems paper:

Label-free quantitative proteomic analysis reveals dysfunction of complement pathway in peripheral blood of schizophrenia patients: Evidence for the immune hypothesis of schizophrenia
Yang Li, Kejun Zhou, Liya Sun, Jinglei Yang, Ming Zhang, Baohu Ji, Kefu Tang, Zhiyun Wei, Guang He, Linghan Gao, Lun Yang, Peng Wang, Ping Yang, Guoying Feng, Lin He and Chunling Wan
Mol. Biosyst., 2012, DOI: 10.1039/C2MB25158B

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Top ten most accessed articles in April

This month sees the following articles in Molecular BioSystems that are in the top ten most accessed:

Optimized TAL effector nucleases (TALENs) for use in treatment of sickle cell disease
Ning Sun, Jing Liang, Zhanar Abil and Huimin Zhao
Mol. BioSyst., 2012, 8, 1255-1263
DOI: 10.1039/C2MB05461B

Synthetic antibodies as tools to probe RNA-binding protein function
John D. Laver, Kristin Ancevicius, Pietro Sollazzo, J. Timothy Westwood, Sachdev S. Sidhu, Howard D. Lipshitz and Craig A. Smibert
Mol. BioSyst., 2012, 8, 1650-1657
DOI: 10.1039/C2MB00007E

Structural analysis of intrinsically disordered proteins by small-angle X-ray scattering
Pau Bernadó and Dmitri I. Svergun
Mol. BioSyst., 2012, 8, 151-167
DOI: 10.1039/C1MB05275F

Positive regulatory dynamics by a small noncoding RNA: speeding up responses under temperature stress
Raúl Guantes, Bastien Cayrol, Florent Busi and Véronique Arluison
Mol. BioSyst., 2012, 8, 1707-1715
DOI: 10.1039/C2MB05479E

Modular recognition of nucleic acids by PUF, TALE and PPR proteins
Aleksandra Filipovska and Oliver Rackham
Mol. BioSyst., 2012, 8, 699-708
DOI: 10.1039/C2MB05392F

Genome-scale genetic manipulation methods for exploring bacterial molecular biology
Alla Gagarinova and Andrew Emili
Mol. BioSyst., 2012, 8, 1626-1638
DOI: 10.1039/C2MB25040C

iLoc-Hum: using the accumulation-label scale to predict subcellular locations of human proteins with both single and multiple sites
Kuo-Chen Chou, Zhi-Cheng Wu and Xuan Xiao
Mol. BioSyst., 2012, 8, 629-641
DOI: 10.1039/C1MB05420A

Short- and long-term dynamic responses of the metabolic network and gene expression in yeast to a transient change in the nutrient environment
Duygu Dikicioglu, Warwick B. Dunn, Douglas B. Kell, Betul Kirdar and Stephen G. Oliver
Mol. BioSyst., 2012, 8, 1760-1774
DOI: 10.1039/C2MB05443D

LC-MS-based metabolomics
Bin Zhou, Jun Feng Xiao, Leepika Tuli and Habtom W. Ressom
Mol. BioSyst., 2012, 8, 470-481
DOI: 10.1039/C1MB05350G

Systematic determinations of SUMOylation activation intermediates and dynamics by a sensitive and quantitative FRET assay
Yang Song and Jiayu Liao
Mol. BioSyst., 2012, 8, 1723-1729
DOI: 10.1039/C2MB05465E

Why not take a look at the articles today and blog your thoughts and comments below.

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Top ten most accessed articles in March

This month sees the following articles in Molecular BioSystems that are in the top ten most accessed:

Optimized TAL effector nucleases (TALENs) for use in treatment of sickle cell disease
Ning Sun, Jing Liang, Zhanar Abil and Huimin Zhao
Mol. BioSyst., 2012, 8, 1255-1263
DOI: 10.1039/C2MB05461B

Identification of novel components of NAD-utilizing metabolic pathways and prediction of their biochemical functions
Robson Francisco de Souza and L. Aravind
Mol. BioSyst., 2012, Advance Article
DOI: 10.1039/C2MB05487F

LC-MS-based metabolomics
Bin Zhou, Jun Feng Xiao, Leepika Tuli and Habtom W. Ressom
Mol. BioSyst., 2012, 8, 470-481
DOI: 10.1039/C1MB05350G

Predicting drug targets based on protein domains
Yin-Ying Wang, Jose C. Nacher and Xing-Ming Zhao
Mol. BioSyst., 2012, 8, 1528-1534
DOI: 10.1039/C2MB05450G

Structural analysis of intrinsically disordered proteins by small-angle X-ray scattering
Pau Bernadó and Dmitri I. Svergun
Mol. BioSyst., 2012, 8, 151-167
DOI: 10.1039/C1MB05275F

Small-molecule modulators of the Sonic Hedgehog signaling pathway
Benjamin Z. Stanton and Lee F. Peng
Mol. BioSyst., 2010, 6, 44-54
DOI: 10.1039/B910196A

Modular recognition of nucleic acids by PUF, TALE and PPR proteins
Aleksandra Filipovska and Oliver Rackham
Mol. BioSyst., 2012, 8, 699-708
DOI: 10.1039/C2MB05392F

Alginate modified nanostructured calcium carbonate with enhanced delivery efficiency for gene and drug delivery
Dong Zhao, Ren-Xi Zhuo and Si-Xue Cheng
Mol. BioSyst., 2012, 8, 753-759
DOI: 10.1039/C1MB05337J

Mapping the genome of Plasmodium falciparum on the drug-like chemical space reveals novel anti-malarial targets and potential drug leads
Kasper Jensen, Damian Plichta, Gianni Panagiotou and Irene Kouskoumvekaki
Mol. BioSyst., 2012, Advance Article
DOI: 10.1039/C2MB00008C

PLMLA: prediction of lysine methylation and lysine acetylation by combining multiple features
Shao-Ping Shi, Jian-Ding Qiu, Xing-Yu Sun, Sheng-Bao Suo, Shu-Yun Huang and Ru-Ping Liang
Mol. BioSyst., 2012, 8, 1520-1527
DOI: 10.1039/C2MB05502C

Why not take a look at the articles today and blog your thoughts and comments below.

Fancy submitting an article to Molecular BioSystems? Then why not submit to us today or alternatively email us your suggestions.

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Top ten most accessed articles in February

This month sees the following articles in Molecular BioSystems that are in the top ten most accessed:

Optimized TAL effector nucleases (TALENs) for use in treatment of sickle cell disease
Ning Sun, Jing Liang, Zhanar Abil and Huimin Zhao
Mol. BioSyst., 2012, 8, 1255-1263
DOI: 10.1039/C2MB05461B

LC-MS-based metabolomics
Bin Zhou, Jun Feng Xiao, Leepika Tuli and Habtom W. Ressom
Mol. BioSyst., 2012, 8, 470-481
DOI: 10.1039/C1MB05350G

Structural analysis of intrinsically disordered proteins by small-angle X-ray scattering
Pau Bernadó and Dmitri I. Svergun
Mol. BioSyst., 2012, 8, 151-167
DOI: 10.1039/C1MB05275F

Modular recognition of nucleic acids by PUF, TALE and PPR proteins
Aleksandra Filipovska and Oliver Rackham
Mol. BioSyst., 2012, 8, 699-708
DOI: 10.1039/C2MB05392F

Towards a robust description of intrinsic protein disorder using nuclear magnetic resonance spectroscopy
Robert Schneider, Jie-rong Huang, Mingxi Yao, Guillaume Communie, Valéry Ozenne, Luca Mollica, Loïc Salmon, Malene Ringkjøbing Jensen and Martin Blackledge
Mol. BioSyst., 2012, Advance Article
DOI: 10.1039/C1MB05291H

How do dynamic cellular signals travel long distances?
Ruth Nussinov
Mol. BioSyst., 2012, 8, 22-26
DOI: 10.1039/C1MB05205E

Towards inferring time dimensionality in protein–protein interaction networks by integrating structures: the p53 example
Nurcan Tuncbag, Gozde Kar, Attila Gursoy, Ozlem Keskin and Ruth Nussinov
Mol. BioSyst., 2009, 5, 1770-1778
DOI: 10.1039/B905661K

Recombinant production of rhesus θ-defensin-1 (RTD-1) using a bacterial expression system
Andrew Gould, Yilong Li, Subhabrata Majumder, Angie E. Garcia, Patrick Carlsson, Alexander Shekhtman and Julio A. Camarero
Mol. BioSyst., 2012, 8, 1359-1365
DOI: 10.1039/C2MB05451E

Proteome-wide detection of phospholipid–protein interactions in mitochondria by photocrosslinking and click chemistry
Jacob Gubbens and Anton I. P. M. de Kroon
Mol. BioSyst., 2010, 6, 1751-1759
DOI: 10.1039/C003064N

PageRank-based identification of signaling crosstalk from transcriptomics data: the case of Arabidopsis thaliana
Nooshin Omranian, Bernd Mueller-Roeber and Zoran Nikoloski
Mol. BioSyst., 2012, 8, 1121-1127
DOI: 10.1039/C2MB05365A

Why not take a look at the articles today and blog your thoughts and comments below.

Fancy submitting an article to Molecular BioSystems? Then why not submit to us today or alternatively email us your suggestions.

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Italian Proteomics themed issue just published

Issue 4 outside front coverIssue 4 of Molecular BioSystems focuses on proteomics, including a collection of articles from the latest Italian Proteomics Association’s National Congress held in Turin last year.  On the cover the editorial  introduction to the issue by the Directory Board of the Italian Proteomics Association:

Integrative proteomics: perspective in complex system interpretation
Andrea Urbani, Alessandra Modesti, Anna Maria Timperio, Luca Bini, Massimo Castagnola, Mauro Fasano and Paola Roncada
DOI: 10.1039/C2MB90009B

Issue 4 inside front coverOn the inside front cover is a HOT article by Swadha Anand and Debasisa Mohanty at the National Institute of Immunology, India,  where they investigate the role of inter-domain movements in substrate channeling by carrying out a series of explicit solvent molecular dynamics simulations.

Inter-domain movements in polyketide synthases: a molecular dynamics study
Swadha Anand and Debasisa Mohanty
DOI: 10.1039/C2MB05425F

Below is a selection of the proteomics-themed papers included in this issue:

Modulation of urinary peptidome in humans exposed to high altitude hypoxia
Veronica Mainini et al.
DOI: 10.1039/C1MB05377A

GENOCOP algorithm and hierarchical grid transformation for image warping of two dimensional gel eletrophoretic maps
Emilio Marengo et al.
DOI: 10.1039/C2MB05396A

Differential protein expression in tears of patients with primary open angle and pseudoexfoliative glaucoma
Damiana Pieragostino et al.
DOI: 10.1039/C1MB05357D

Proteomic analysis in clear cell renal cell carcinoma: identification of differentially expressed protein by 2-D DIGE
Marina Pitto et al.
DOI: 10.1039/C2MB05390J

Comparative proteomics to evaluate multi drug resistance in Escherichia coli
Paola Roncada et al.
DOI: 10.1039/C1MB05385J

Read the rest of Issue 4 here

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Top ten most accessed articles in January

This month sees the following articles in Molecular BioSystems that are in the top ten most accessed:

Dissecting ensemble networks in ES cell populations reveals micro-heterogeneity underlying pluripotency
Jamie Trott, Katsuhiko Hayashi, Azim Surani, M. Madan Babu and Alfonso Martinez-Arias
Mol. BioSyst., 2012, 8, 744-752
DOI: 10.1039/C1MB05398A

Structural analysis of intrinsically disordered proteins by small-angle X-ray scattering
Pau Bernadó and Dmitri I. Svergun
Mol. BioSyst., 2012, 8, 151-167
DOI: 10.1039/C1MB05275F

LC-MS-based metabolomics
Bin Zhou, Jun Feng Xiao, Leepika Tuli and Habtom W. Ressom
Mol. BioSyst., 2012, 8, 470-481
DOI: 10.1039/C1MB05350G

Modular recognition of nucleic acids by PUF, TALE and PPR proteins
Aleksandra Filipovska and Oliver Rackham
Mol. BioSyst., 2012, 8, 699-708
DOI: 10.1039/C2MB05392F

How do dynamic cellular signals travel long distances?
Ruth Nussinov
Mol. BioSyst., 2012, 8, 22-26
DOI: 10.1039/C1MB05205E

Global mapping of protein phosphorylation events identifies Ste20, Sch9 and the cell-cycle regulatory kinases Cdc28/Pho85 as mediators of fatty acid starvation responses in Saccharomyces cerevisiae
Dennis Pultz, Martin V. Bennetzen, Steven Vestergaard Rødkær, Christine Zimmermann, Jorrit M. Enserink, Jens S. Andersen and Nils J. Færgeman
Mol. BioSyst., 2012, 8, 796-803
DOI: 10.1039/C2MB05356J

Small-molecule modulators of the Sonic Hedgehog signaling pathway
Benjamin Z. Stanton and Lee F. Peng
Mol. BioSyst., 2010, 6, 44-54
DOI: 10.1039/B910196A

Modulation of gap junction channels and hemichannels by growth factors
Kurt A. Schalper, Manuel A. Riquelme, María C. Brañes, Agustín D. Martínez, José Luis Vega, Viviana M. Berthoud, Michael V. L. Bennett and Juan C. Sáez
Mol. BioSyst., 2012, 8, 685-698
DOI: 10.1039/C1MB05294B

Next-generation sequencing identifies novel microRNAs in peripheral blood of lung cancer patients
Andreas Keller, Christina Backes, Petra Leidinger, Nathalie Kefer, Valesca Boisguerin, Catalin Barbacioru, Britta Vogel, Mark Matzas, Hanno Huwer, Hugo A. Katus, Cord Stähler, Benjamin Meder and Eckart Meese
Mol. BioSyst., 2011, 7, 3187-3199
DOI: 10.1039/C1MB05353A

Fuzziness: linking regulation to protein dynamics
Monika Fuxreiter
Mol. BioSyst., 2012, 8, 168-177
DOI: 10.1039/C1MB05234A

Why not take a look at the articles today and blog your thoughts and comments below.

Fancy submitting an article to Molecular BioSystems? Then why not submit to us today or alternatively email us your suggestions.

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Review: NF-κB as a potential therapeutic target in microbial diseases

C2MB05335G graphical abstractMolecular BioSystems has just published a review by Massimiliano Galdiero and colleagues at the University of Naples, on the use of the nuclear transcription factor NF-κB as a potential therapeutic target in microbial diseases.

NF-κB directly targets the host inflammatory response, and as with other therapies directed towards host-cell molecules, may provide alternative approaches where conventional vaccines or antimicrobials have failed to combat newly emerging pathogens. The review focuses on the role of NF-κB in microbial infections, highlighting its importance as a therapeutic target and reviewing the current understanding of how NF-κB inhibition can be considered a potential paradigm for the development of novel antimicrobial therapies.

NF-κB as a potential therapeutic target in microbial diseases
Mariateresa Vitiello, Marilena Galdiero, Emiliana Finamore, Stefania Galdiero and Massimiliano Galdiero
DOI: 10.1039/C2MB05335G

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Top ten most accessed articles in December

This month sees the following articles in Molecular BioSystems that are in the top ten most accessed:

How do dynamic cellular signals travel long distances?
Ruth Nussinov
Mol. BioSyst., 2012, 8, 22-26
DOI: 10.1039/C1MB05205E

Analysis of the Fragile X mental retardation protein isoforms 1, 2 and 3 interactions with the G-quadruplex forming semaphorin 3F mRNA
Timothy L. Evans,  Anna C. Blice-Baum and Mihaela-Rita Mihailescu
Mol. BioSyst., 2012, 8, 642-649
DOI: 10.1039/C1MB05322A

Next-generation sequencing identifies novel microRNAs in peripheral blood of lung cancer patients
Andreas Keller, Christina Backes, Petra Leidinger, Nathalie Kefer, Valesca Boisguerin, Catalin Barbacioru, Britta Vogel, Mark Matzas, Hanno Huwer, Hugo A. Katus, Cord Stähler, Benjamin Meder and Eckart Meese
Mol. BioSyst., 2011, 7, 3187-3199
DOI: 10.1039/C1MB05353A

Molecular mechanisms linking diabetes mellitus and Alzheimer disease: beta-amyloid peptide, insulin signaling, and neuronal function
Shuko Takeda, Naoyuki Sato, Hiromi Rakugi and Ryuichi Morishita
Mol. BioSyst., 2011, 7, 1822-1827
DOI: 10.1039/C0MB00302F

LC-MS-based metabolomics
Bin Zhou, Jun Feng Xiao, Leepika Tuli and Habtom W. Ressom
Mol. BioSyst., 2012, 8, 470-481
DOI: 10.1039/C1MB05350G

Phosphoproteomic studies of receptor tyrosine kinases: future perspectives
Paul H. Huang
Mol. BioSyst., 2012, Advance Article
DOI: 10.1039/C1MB05327B

Pro-oxidant and antioxidant effects of N-acetylcysteine regulate doxorubicin-induced NF-kappa B activity in leukemic cells
Nnenna Adimora Finn and Melissa Lambeth Kemp
Mol. BioSyst., 2012, 8, 650-662
DOI: 10.1039/C1MB05315A

Analysis of miRNA regulation suggests an explanation for ‘unexpected’ increase in target protein levels
Sucheta A. Gokhale and Chetan J. Gadgil
Mol. BioSyst., 2012, 8, 760-765
DOI: 10.1039/C1MB05368J

Order and disorder in large multi-site docking proteins of the Gab family—implications for signalling complex formation and inhibitor design strategies
Philip C. Simister and Stephan M. Feller
Mol. BioSyst., 2012, 8, 33-46
DOI: 10.1039/C1MB05272A

Structural analysis of intrinsically disordered proteins by small-angle X-ray scattering
Pau Bernadó and Dmitri I. Svergun
Mol. BioSyst., 2012, 8, 151-167
DOI: 10.1039/C1MB05275F

Why not take a look at the articles today and blog your thoughts and comments below.

Fancy submitting an article to Molecular BioSystems? Then why not submit to us today or alternatively email us your suggestions.

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