prediction of protein function two basic concepts and one practical recipe

... Fraction of consensus of prediction [F(preds)] as a function of the number of contributing predictions [N(c-preds)] (B) Fraction of consensus of prediction [F(c-preds)] as a function of the redundancy ... the consensus predictions for targets with no current function annotation are reported in Table Conclusions The prediction of protein function is one of the major challenges of protein bioinformatics ... will provide us with more and more structures of proteins with very low sequence identity with proteins of known structure The task of predicting the function of a protein is exceptionally interesting...

Ngày tải lên: 30/03/2014, 10:20

... between the practical performance of numerous plasma-based nanofabrication facilities and in-depth understanding of fundamental properties and operation principles of such devices and tools and elementary ... preparation of building units and the actual synthesis of the NA and is illustrated in Figure 1.1 If 1.1 Main Concepts and Issues Figure 1.1 Basic concept of nanoassembly appropriate, the process of nanoassembly ... Details 149 Basic Assumptions of the Model 152 Particle and Power Balance in Plasma Discharge 153 Densities of Neutral and Charged Species 155 Effect of RF Power 156 Effect of Argon and Methane...

Ngày tải lên: 04/06/2014, 14:49

... content of total protein (mg g -1FW) and the % yield of the extraction of soluble proteins (% of extracted soluble proteins respect to the total content) for the roots and the leaves of the plants ... changes in the content of total proteins, amino acids, reducing sugars and sucrose in roots (A, C, E and G) and leaves (B, D, F, and H) and chlorophyll content in leaves (I) of Zea mays plants, ... both in the roots and in the leaves of C and N samples (Table 1) The adopted protocol permitted to obtain an extraction yield of soluble proteins of about 14% and 20% for roots and leaves, respectively...

Ngày tải lên: 12/08/2014, 03:21

... or selections of the single predictors Details of the profile and physical property terms of the scoring function are provided and can also be used to check and rationalize whether and why certain ... folds back to protein core and reduces flexibility and accessibility of C-terminus Corr, correlation; LS, learning set; nrLS, nonredundant; prof, profile (and listed in Tables and together with ... Figure GGT1 substrates Sequence logos [74] and physicochemical property profiles of FT and Sequence logos [74] and physicochemical property profiles of FT and GGT1 substrates Selected physical properties...

Ngày tải lên: 14/08/2014, 14:21

... determining protein function, especially that of proteins of known structure but unknown function, and is a necessary prerequisite in functional proteomics studies We trained a neural network system ... analysed the possibility of predicting the residues forming part of protein protein interacting surfaces in proteins of known structure We have used two very basic sources of information: evolutionary ... the neural network-based predictor Q2, number of correct predictions/number of total predictions C, correlation coefficient P(x), number of correct predictions in class x/number total predictions...

Ngày tải lên: 21/02/2014, 15:20

... increase number of candidates and max length of frequent itemsets Dimensionality (number of items) of the data set – more space is needed to store support count of each item – if number of frequent ... Number of Comparisons Candidate counting: – Scan the database of transactions to determine the support of each candidate itemset – To reduce the number of comparisons, store the candidates in a hash ... number of candidates (M) – Complete search: M=2d – Use pruning techniques to reduce M Reduce the number of transactions (N) – Reduce size of N as the size of itemset increases – Used by DHP and...

Ngày tải lên: 15/03/2014, 09:20

... Introduction to Data Mining Applications of Cluster Analysis Understanding – Group related documents for browsing, group genes and proteins that have similar functionality, or group stocks with similar ... Mining 15 Types of Clusters: Objective Function Clusters Defined by an Objective Function – Finds clusters that minimize or maximize an objective function – Enumerate all possible ways of dividing ... ‘mixture' of a number of statistical distributions © Tan,Steinbach, Kumar Introduction to Data Mining 16 Types of Clusters: Objective Function … Map the clustering problem to a different domain and...

Ngày tải lên: 15/03/2014, 09:20

... endometrium and finally, secretion of cytokines and growth factors by leukocytes and macrophages into the peritoneal fluid of women with endometriosis One hypothesis is that secretion of various ... progesterone and androgen are mediated through their respective receptors - Estrogen Receptors (ER), Progesterone Receptors (PR) Endometriosis and Androgen Receptors (AR) - these receptors must be and ... mesothelium and stimulates proliferation of endometriosis stromal cells Both of these may be important mechanisms in the pathogenesis of endometriosis, and it has been suggested that TNF-α is one of the...

Ngày tải lên: 30/03/2014, 19:20

... regulatory protein that is, like protein B of sMMO, a small protein without prosthetic groups [44] The susceptibility of protein B and other regulatory proteins (such as the regulatory protein of alkene ... Incubation of the purified protein B/B¢ mix at 20 °C for 1–2 days enabled complete conversion of protein B to B¢ Separation of proteins B and B¢ by chromatofocusing chromatography Chromatofocusing ... phenomenon, truncation of protein B offers a possible mechanism to control the amount of active protein B within the cell and thus regulate the rates of methane oxidation and NADH consumption by...

Ngày tải lên: 31/03/2014, 09:20

... in which nb is the number of moles of benzene, V † is the volume of one mole of pure mb benzene, nt is the number of moles of toluene, and V † is the volume of one mole of mt pure toluene Suppose ... (2.33)] As one example of the application of Euler’s theorem, we refer again to the volume of a two- component system Evidently the total volume is a function of the number of moles of each component: ... Calculation of DG8 from Calorimetric Measurements / 285 m 12.4 Calculation of a Gibbs Function of a Reaction from Standard Gibbs Function of Formation / 286 12.5 Calculation of a Standard Gibbs Function...

Ngày tải lên: 02/04/2014, 16:43

... different) two- state system All these examples make essential use of superpositions of the kind |α = c1 |1 + c2 |2 , where the states |1 , |2 , and (all) |α can be observed as phys- Basic Concepts and ... spectacular success of the superposition principle was the prediction of new particles formed as superpositions of K-mesons and their antiparticles (Gell-Mann and Pais 1955, Lee and Yang 1956) A ... means of “observables”, formally represented by hermitean operators, and introduced in addition to the concepts of quantum states and their dynamics as a fundamental and independent ingredient of...

Ngày tải lên: 24/04/2014, 17:13

... present thc electronic band structure of single isolated tubes and of nanotube bundles as one of the two focii of this book in Chap The optical and transport properties of carbon nanotuhes arc ... understanding in solidstate physics because of the one- dimensional nature of carbon nanotubes The two focii of the book, electronic and vihrational properties of carbon nanotubes, rely on a basic ... the electronic band structure of a particular nanotube is found by cutting the two- dimensional band structure of graphene (see background of Fig 2.5) ~ into q lines of length x and distance /...

Ngày tải lên: 04/06/2014, 15:05

... manuscript and designing of data and revising it critically, KCN has contributed in acquisition of data and analysis and interpretation of data, and JHY has contributed in acquisition and analysis of ... contoured in situ, resulted in a high rate of failure Altay et al [24] reported that use of four pairs of screws (two above and two below) to lengthen the level arm of the construct would probably not ... pedicle screw fixation two levels above and one level below the fracture vertebra, to study the effectiveness of fixation in preventing postoperative development of kyphosis and hardware failure...

Ngày tải lên: 20/06/2014, 04:20

... endometrium and finally, secretion of cytokines and growth factors by leukocytes and macrophages into the peritoneal fluid of women with endometriosis One hypothesis is that secretion of various ... progesterone and androgen are mediated through their respective receptors - Estrogen Receptors (ER), Progesterone Receptors (PR) Endometriosis and Androgen Receptors (AR) - these receptors must be and ... mesothelium and stimulates proliferation of endometriosis stromal cells Both of these may be important mechanisms in the pathogenesis of endometriosis, and it has been suggested that TNF-α is one of the...

Ngày tải lên: 27/06/2014, 09:20

... of tubercular lymphadenitis: two case reports and a review of the literature Journal of Medical Case Reports 2010 4:369 Submit your next manuscript to BioMed Central and take full advantage of: ... onset between two and 35 years of age is called lymphedema praecox It is the most common form of primary lymphedema, accounting for 80 percent of the cases The familial version of lymphedema ... ultrasonography of her abdomen and pelvis, and pap smear were normal She was taken up for surgery after the correction of her anemia A wide local excision with a primary closure was performed Part of the...

Ngày tải lên: 11/08/2014, 02:22

... left submandibular (3 × cm) and left submental (2 × cm) regions of his body His shoulder and elbow joints were warm, while their range of movement, as well as the flexion and extension of his wrist, ... infiltration of eosinophils and other inflammatory cells in muscle and fat tissues of (A) patient and (B) patient Hematoxylin and eosin stain, magnification ×200 Danis et al Journal of Medical ... study of twenty cases Am J Pathol 1979, 96(2):493-507 Bischoff L, Derk CT: Eosinophilic fasciitis: demographics, disease pattern and response to treatment: report of 12 cases and review of the...

Ngày tải lên: 11/08/2014, 14:21

... RT and MAPK1, gp41 and LCK, gp41 and PTPRC, and IN and PRKCH The other five interactions (RT and PIN1, p2 and MAPK1, p2 and YWHAZ, gp41 and PLK1, gp41 and MAPK1, gp41 and CLTC, IN and XPO1, and ... percent of true positives and standard error of the mean for random predictions without any filtering (None), CC Filtering alone (CC), Literature Filtering alone (Lit), and both Literature and CC ... lifecycle of HIV-1 and identification of potential clinical targets Results and Discussion Identification of HIV-similar human proteins To construct a map of interactions between HIV-1 and human proteins,...

Ngày tải lên: 12/08/2014, 04:20

... discrimination power of the two candidate hexamers (candidate_hexamer1 and candidate_hexamer2) could then be measured by the difference of the frequency between promoters and non-promoters The ... Department of Information and Communications, Gwangju Institute of Science and Technology, South Korea 2Department of Biochemistry and Molecular Biology, University of Dhaka, Bangladesh 3Department of ... proposed a standard for evaluating promoter prediction software, and identified four highly performing software programs; although each of these programs works on different principles and were designed...

Ngày tải lên: 12/08/2014, 17:20

... tonsils of three animals at PIDs 3, and and from the ileocoecal lymph node of one pig at PID and mesenteric lymph node of one animal at PID http://www.actavetscand.com/content/50/1/34 The results of ... lymph nodes and heart muscle at PID Subsequently, the VI tests detected the virus from the tonsils and lymph nodes of all infected animals, with the exception of the tonsil samples of one pig (Table ... of CSFV in the natural host, to obtain data of comparative pathology and to compare the applicability of virus detection methods These observations will contribute to a better understanding of...

Ngày tải lên: 12/08/2014, 18:22

... largest amount of PDI protein, followed by the kidneys and fat tissues, and it has been shown that fasting and refeeding affect the PDI protein and its enzyme activities [25] PDI is one of the endoplasmic ... biosynthesis of many extracellular proteins that are usually coupled to the process of protein folding [21] Disulfide formation involves the endogenous oxidized and reduced forms of glutathione and is ... reticulum-associated protein, together with PDI, has critical functions as a regulatory protein for cell death and therefore that upregulation of these proteins may result in the acquisition of tolerance...

Ngày tải lên: 13/08/2014, 11:22