Practical limits for reverse engineering of dynamical systems: a statistical analysis of sensitivity and parameter inferability in systems biology models.

abstract：:At the intersection between artificial intelligence and statistics, supervised learning allows algorithms to automatically build predictive models from just observations of a system. During the last twenty years, supervised learning has been a tool of choice to analyze the always increasing and complexifying data gene...

journal_title：Molecular bioSystems

authors： Geurts P,Irrthum A,Wehenkel L

更新日期：2009-12-01 00:00:00

abstract：:The main objectives of this work were to characterise a range of purified recombinant sterol 3β-glucosyltransferases and show that rational sampling of the diversity that exists within sterol 3β-glucosyltransferase sequence space can result in a range of enzyme selectivities. In our study the catalytically active doma...

journal_title：Molecular bioSystems

authors： Malik V,Zhang M,Dover LG,Northen JS,Flinn A,Perry JJ,Black GW

更新日期：2013-11-01 00:00:00

abstract：:Histone deacetylases (HDACs) contribute to regulation of gene expression by mediating higher-order chromatin structures. They assemble into large multiprotein complexes that regulate activity and specificity. We report the development of small molecule probes with class IIa and pan-HDAC activity that contain photoreac...

journal_title：Molecular bioSystems

authors： Albrow VE,Grimley RL,Clulow J,Rose CR,Sun J,Warmus JS,Tate EW,Jones LH,Storer RI

更新日期：2016-05-24 00:00:00

abstract：:In the last few decades a negative association between the level of milk production and fertility has been observed. Currently, the most utilized method of measuring male fertility employed by the livestock industry is related to the Non-Return Rate (NRR). Through differential proteome analysis, this study evaluated c...

journal_title：Molecular bioSystems

authors： Soggiu A,Piras C,Hussein HA,De Canio M,Gaviraghi A,Galli A,Urbani A,Bonizzi L,Roncada P

更新日期：2013-06-01 00:00:00

abstract：:New-type oseltamivir-resistant H1N1 influenza viruses have been a major threat to human health since the 2009 flu pandemic. To resolve the drug resistance issue, we aimed to identify a new type of inhibitors against H1 from traditional Chinese medicine (TCM) by employing the world's largest TCM database () for virtual...

journal_title：Molecular bioSystems

authors： Chang SS,Huang HJ,Chen CY

更新日期：2011-12-01 00:00:00

abstract：:Biochemical modifications to mRNA, especially N6-methyladenosine (m6A) and 5-methylcytosine (m5C), have been recently shown to be associated with crucial biological functions. Despite the intriguing advancements, little is known so far about the dynamic landscape of RNA methylome across different cell types and how th...

journal_title：Molecular bioSystems

authors： Liu L,Zhang SW,Zhang YC,Liu H,Zhang L,Chen R,Huang Y,Meng J

更新日期：2015-01-01 00:00:00

abstract：:A liquid chromatography coupled with mass spectrometry (LC/MS) based metabonomics approach was applied to characterize the aging of rats, and the anti-aging effect of total flavones of Epimedium (TFE), a traditional Chinese medicine, has also been investigated. Serum samples collected from 4, 10, 18 and 24 month-old r...

journal_title：Molecular bioSystems

authors： Yan S,Wu B,Lin Z,Jin H,Huang J,Yang Y,Zhang X,Shen Z,Zhang W

更新日期：2009-10-01 00:00:00

abstract：:Lamellipodin (Lpd) protein plays an important role in the formation of lamellipodial protrusion which is crucial in actin dynamics, cell polarity and motility. Lpd promotes actin polymerization with the help of members of the Ena/VASP family of actin regulators and tethering them to actin filaments. It is well documen...

journal_title：Molecular bioSystems

authors： Gorai S,Paul D,Haloi N,Borah R,Santra MK,Manna D

更新日期：2016-03-01 00:00:00

abstract：:α-Oxoaldehydes, which are produced in higher quantities in diabetes, uremia, oxidative stress, inflammation and aging, react with the amino, guanidine and thiol groups of proteins and cause the formation of advanced glycated end-products and protein cross-linking. To prevent these reactions, the efficiency of low mole...

journal_title：Molecular bioSystems

authors： Aćimović JM,Penezić AZ,Pavićević ID,Jovanović VB,Mandić LM

更新日期：2014-08-01 00:00:00

abstract：:The chemical composition of the cervical mucus (CM), its physical characteristics and the volume of secretion change cyclically throughout the menstrual cycle. The aim of this study was to identify the constitutive protein composition of CM of fertile women and the changes in the CM proteome throughout the menstrual c...

journal_title：Molecular bioSystems

authors： Grande G,Milardi D,Vincenzoni F,Pompa G,Biscione A,Astorri AL,Fruscella E,De Luca A,Messana I,Castagnola M,Marana R

更新日期：2015-06-01 00:00:00

abstract：:Mirror image phage display is a straightforward approach to identify new potentially therapeutically active D-enantiomeric peptides. Such D-peptides are more resistant to proteolytic degradation compared to L-peptides. In this review, several examples of mirror image phage display derived D-peptides with therapeutical...

journal_title：Molecular bioSystems

authors： Funke SA,Willbold D

更新日期：2009-08-01 00:00:00

abstract：:Epigenetic regulation by histone methylation is crucial for proper programming of the genome during development. Homeostasis of histone methylation is balanced by the activities of histone methyltransferases and demethylases. Although these methyltransferases and demethylases represent logical targets for potential dr...

journal_title：Molecular bioSystems

authors： Liu Y,Platchek M,Kement B,Bee WT,Truong M,Zeng X,Hung S,Lin H,Morrow D,Kallal LA,Xie Q,Agarwal P,Pope AJ,Wu Z

更新日期：2014-02-01 00:00:00

abstract：:Biotin is an enzyme cofactor indispensable to metabolic fixation of carbon dioxide in all three domains of life. Although the catalytic and physiological roles of biotin have been well characterized, the biosynthesis of biotin remains to be fully elucidated. Studies in microbes suggest a two-stage biosynthetic pathway...

journal_title：Molecular bioSystems

authors： Lin S,Cronan JE

更新日期：2011-06-01 00:00:00

abstract：:The crystal structure of the versatile CYP109B1 enzyme from Bacillus subtilis has been solved at 1.8 Å resolution. This is the first structure of an enzyme from this CYP family, whose members are prevalent across diverse species of bacteria. In the crystal structure the enzyme has an open conformation with an access c...

journal_title：Molecular bioSystems

authors： Zhang A,Zhang T,Hall EA,Hutchinson S,Cryle MJ,Wong LL,Zhou W,Bell SG

更新日期：2015-03-01 00:00:00

abstract：:The major obstacle for the development of targeted therapies is the lack of pharmacodynamic (PD) biomarkers to provide an early readout of biological activities. As the modulation of metabolites may reflect the biological changes occurring in the targets, metabolomics is promising to be an efficient way to explore PD ...

journal_title：Molecular bioSystems

authors： Fang J,Wang L,Wang Y,Qiu M,Zhang Y

更新日期：2017-07-25 00:00:00

abstract：:Unbalanced uptake of Omega 6/Omega 3 (ω-6/ω-3) ratios could increase chronic disease occurrences, such as inflammation, atherosclerosis, or tumor proliferation, and methylation methods for measuring the ruminal microbiome fatty acid (FA) composition/distribution play a vital role in discovering the contribution of foo...

journal_title：Molecular bioSystems

authors： Liu Y,Buendía-Rodríguez G,Peñuelas-Rívas CG,Tan Z,Rívas-Guevara M,Tenorio-Borroto E,Munteanu CR,Pazos A,González-Díaz H

更新日期：2015-11-01 00:00:00

abstract：:The non-classical zinc finger protein, Neural Zinc Finger Factor-1, contains six Cys2His2Cys domains. All three cysteines and the second histidine directly bind Zn(II). Using a combination of mutagenesis, metal coordination and DNA binding studies, we report that the first histidine is involved in a functionally impor...

journal_title：Molecular bioSystems

authors： Besold AN,Amick DL,Michel SL

更新日期：2014-07-01 00:00:00

abstract：:The emerging field of synthetic biology is generating insatiable demands for synthetic genes, which far exceed existing gene synthesis capabilities. This review discusses the current methods of chemical DNA synthesis and gene assembly, as well as the latest engineering tools, technologies and trends which could potent...

journal_title：Molecular bioSystems

authors： Tian J,Ma K,Saaem I

更新日期：2009-07-01 00:00:00

abstract：:Thyroid carcinoma is a common endocrine malignancy worldwide, accounting for approximately 1% of all diagnosed cancers and about 91.5% of the malignancies of head and neck. However, differentiating malignant thyroid nodules from benign ones remains a diagnostic challenge. Thus, novel molecular markers that enable non-...

journal_title：Molecular bioSystems

authors： Yao Z,Yin P,Su D,Peng Z,Zhou L,Ma L,Guo W,Ma L,Xu G,Shi J,Jiao B

更新日期：2011-09-01 00:00:00

abstract：:Plant stress hormones, such as jasmonates (JAs) and ethylene (ET) are essential in plant defence against stress conditions. JAs are used in cosmetics and food flavouring, and the recently demonstrated anti-cancer activity of JAs highlights their potential in health protection. It reinforces the need for a better under...

journal_title：Molecular bioSystems

authors： Schweighofer A,Meskiene I

更新日期：2008-08-01 00:00:00

abstract：:α-Anomers of 2'-deoxyadenosine (αdA) are major products of deoxyadenosine damage when DNA is γ-irradiated under anoxic conditions. Such lesions are a threat to genomic stability and are known to be processed by human apurinic/apyrimidinic endonuclease 1 (APE1). The aim of this study was to determine whether the α-anom...

journal_title：Molecular bioSystems

authors： Timofeyeva NA,Fedorova OS

更新日期：2016-10-18 00:00:00

abstract：:Growth factor receptor signaling via receptor tyrosine kinases (RTKs) is one of the basic cellular communication principals found in all metazoans. Extracellular signals are transferred via membrane spanning receptors into the cytoplasm, reversible tyrosine phosphorylation being the hallmark of all RTKs. In recent yea...

journal_title：Molecular bioSystems

authors： Dengjel J,Kratchmarova I,Blagoev B

更新日期：2009-10-01 00:00:00

abstract：:We employed high-temperature classical molecular dynamics (MD) simulations to investigate the unfolding process of the wild-type (WT) and F508del-NBD1 domains of CFTR protein, with and without second-site mutations. To rationalize the in vitro behavior of F508del-NBD1, namely its lower folding yield and higher aggrega...

journal_title：Molecular bioSystems

authors： Estácio SG,Martiniano HF,Faísca PF

更新日期：2016-08-16 00:00:00

abstract：:Sponge metagenomes are accessible genetic sources containing genes and gene clusters responsible for the biosynthesis of sponge-derived bioactive natural products. In this study, we obtained the clone pDC112, producing turbomycin A and 2,2-di(3-indolyl)-3-indolone, based on the functional screening of the metagenome l...

journal_title：Molecular bioSystems

authors： Takeshige Y,Egami Y,Wakimoto T,Abe I

更新日期：2015-05-01 00:00:00

abstract：:The advent of large scale sequencing methods has enabled analyses of the protein-coding parts of cancer genomes to find the mutated genes that cause common human cancers. Unbiased mutation analyses of human tumors originating in the breast, colon, brain, and pancreas have revealed genomic landscapes composed of a few ...

journal_title：Molecular bioSystems

authors： Ali MA,Sjöblom T

更新日期：2009-09-01 00:00:00

abstract：:DNA-binding proteins play a pivotal role in various biological activities. Identification of DNA-binding residues (DBRs) is of great importance for understanding the mechanism of gene regulations and chromatin remodeling. Most traditional computational methods usually construct their predictors on static non-redundant...

journal_title：Molecular bioSystems

authors： Chai H,Zhang J,Yang G,Ma Z

更新日期：2016-11-15 00:00:00

abstract：:The selective inhibition for JAK2 over the other JAK family kinases (JAK1, JAK3 and TYK2) has shared an immense challenge due to high conservatism. In this paper, the highly JAK2 selective mechanism of the thienopyridine derivative was identified at the molecular level, based on insights into the inhibitory effects of...

journal_title：Molecular bioSystems

authors： Li JJ,Cheng P,Tu J,Zhai HL,Zhang XY

更新日期：2016-02-01 00:00:00

abstract：:Epithelial ovarian cancer (EOC) is the most lethal of gynecologic malignancies due to the high rate of recurrence and poor prognosis. Predicting the prognosis in patients with EOC is clinically challenging, partly because appropriate biomarkers of recurrence have yet to be explored. In this prospective study, pre-trea...

journal_title：Molecular bioSystems

authors： Zhang H,Ge T,Cui X,Hou Y,Ke C,Yang M,Yang K,Wang J,Guo B,Zhang F,Lou G,Li K

更新日期：2015-02-01 00:00:00

abstract：:Cancers frequently develop resistance to paclitaxel but the underlying molecular mechanisms remain to be determined. We have investigated the proteins that are associated with the paclitaxel resistance in human breast cancer MCF-7 cells using proteomic analysis. Paclitaxel resistant human breast cancer MCF-7 cells (MC...

journal_title：Molecular bioSystems

authors： Chen S,Dong Q,Hu S,Cai J,Zhang W,Sun J,Wang T,Xie J,He H,Xing J,Lu J,Dong Y

更新日期：2014-02-01 00:00:00

abstract：:Polycystic ovary syndrome (PCOS) is one of the most commonly occurring metabolic and endocrinological disorders affecting women of reproductive age. Metabolomics is an emerging field that holds promise in understanding disease pathophysiology. Recently, a few metabolomics based studies have been attempted in PCOS pati...

journal_title：Molecular bioSystems

authors： RoyChoudhury S,Mishra BP,Khan T,Chattopadhayay R,Lodh I,Datta Ray C,Bose G,Sarkar HS,Srivastava S,Joshi MV,Chakravarty B,Chaudhury K

更新日期：2016-10-18 00:00:00