Randomized Dimension Reduction on Massive Data

Scalability of statistical estimators is of increasing importance in modern applications and dimension reduction is often used to extract relevant information from data. A variety of popular dimension reduction approaches can be framed as symmetric generalized eigendecomposition problems. In this paper we outline how taking into account the low rank structure assumption implicit in these dimension reduction approaches provides both computational and statistical advantages. We adapt recent randomized low-rank approximation algorithms to provide efficient solutions to three dimension reduction methods: Principal Component Analysis (PCA), Sliced Inverse Regression (SIR), and Localized Sliced Inverse Regression (LSIR). A key observation in this paper is that randomization serves a dual role, improving both computational and statistical performance. This point is highlighted in our experiments on real and simulated data.Comment: 31 pages, 6 figures, Key Words:dimension reduction, generalized eigendecompositon, low-rank, supervised, inverse regression, random projections, randomized algorithms, Krylov subspace method

After-effect of Some Herbicides and Their Mixtures with Growth Regulator and Foliar Fertilizer on the Primary Germ Weight of Cotton Seeds (Gossypium Hirsutum L.)

The trial was carried out during 2013-2015, with two cotton cultivars ndash%253B Helius and Darmi (Gossypium hirsutum L.). Herbicides Goal 2 Е (oxifluorfen), Linuron45 SC (linuron), Wing P (pendimethalin %2B dimethenamid), Merlin 750 WG (izoxaflutole), Bazagran 480 SL (bentazone) were studied. These herbicides were used alone or in combinations with the growth regulator Amalgerol premium or with the foliar fertilizer Lactofol O during the budding stage of cotton. From the viewpoint of cotton growing technology, technologically the most valuable are combinations of all herbicides with Lactofol O, which are followed by Wing-P %2B Amalgerol, Bazagran 480 SL %2B Amalgerol and sole use of herbicide Wing-P on cultivar Helius. Technologically the most valuable are herbicides Goal 2 E and Wing-P and tank mixtures Goal 2 E %2B Amalgerol, Wing-P %2B Amalgerol, Merlin 750 WG %2B Amalgerol, Bazagran 480 SL %2B Amalgerol, Wing-P %2B Lactofol O, Merlin 750 WG %2B Lactofol O and Bazagran 480 SL %2B Lactofol O on cultivar Darmi. These variants combine biggest primary germ weight and high stability of this index during the different years. The alone use of the herbicides Linuron 45 SC and Merlin 750 WG has low assessment and should be avoided

Evidence-ranked motif identification

A new computational method for the identification of regulatory motifs from large genomic datasets is presented her

After-effect of Foliar-Applied Herbicides for Broad-leaved Weeds on the Primary Germ Length of Cotton Seeds (Gossypium Hirsutum L.)

The trial was carried out during 2013-2015, with twelve cotton cultivars (Gossypium hirsutum L.). Influence of herbicides Bazagran 480 SL (bentazone), Pulsar 40 (imazamox) and Express 50 VG (tribenuron-methyl) was studied. These herbicides were used during the budding stage of cotton. The herbicide Bazagran 480 SL has the highest phytotoxicity on the primary germ length of seeds of cotton cultivars Chirpan-539 and Trakia and the lowest on cultivar Natalia. The herbicide Pulsar 40 has the highest phytotoxicity on the primary germ length of seeds of cotton cultivar Dorina and the lowest on the cultivars IPK-Veno and Viki. The herbicide Express 50 VG has the highest phytotoxicity on the primary germ length of seeds of the cotton cultivar Chirpan-539 and the lowest on the cultivars Helius and Trakia. From the viewpoint of cotton growing technology, technologically the most valuable are all cultivars, by foliar treatment with herbicide Bazagran 480 SL. Technologically the most valuable are cultivars Viki, IPK-Veno, Boyana and Natalia by foliar treatment with herbicide Pulsar 40. Technologically the most valuable are cultivars Helius, Trakia, Viki, Avangard and Nelina by foliar treatment with herbicide Express 50 VG. These variants combine high primary germ lengths and high stability of this index during the different years

IRON REMOVAL FROM LADEN BIOLEACHING SOLUTION BY PROCESSES OF SOLVENT EXTRACTION AND MAGNETITE SYNTHESIS

Laden leach solution, generated from bioleaching of pyrometallurgical copper slags with a mixed culture of moderately thermophilic bacteria in a bioreactor, contains several base metals (Cu, Co, Zn) and a very high concentration of iron (33,9 g/ L). Further processing of cobalt and zinc to the respective final products requires preparatory iron removal from the laden leach solution. The direct iron removal from that solution as goethite was unacceptable because of the significant co-precipitation of copper and cobalt from the solution. The main aim of this paper is to study magnetite (Fe3O4) synthesis as an approach for iron removal to a value-added product as a step of the processing of a laden solution generated due to the bioleaching of non-ferrous metals in a bioreactor. Ferrous iron oxidation to ferric state was efficient when the addition of H2O2 (30 %) was combined with maintaining the pH 3,1-3,3 with NaOH and air purging. Solvent extraction with 25 % D2EHPA and 7,5 % TBP dissolved in kerosene efficiently separated the dissolved iron and the base metals from the processed solution. However, in the presence of H2, the iron was stripped from the organic solvent with low acid consumption. The applied precise control of the chemical precipitation and oxidation processes at 50 degrees Celsius allowed the iron content (11,7 g/ L) in the stripping solution to be removed efficiently as magnetite (Fe3O4). Based on the chemical content of iron, copper and sulphur, the synthesised nanoparticles of magnetite could be applicable in many sectors (steel, chemical, and electronics)

Transect through the Cenozoic magmatism in WSW Bulgaria and Macedonia from Pirin Mountain to Kozhuf: temporal and isotope geochemistry constraints

Closing of Vardar Ocean at the Late Cretaceous to Early Cenozoic was followed by collision which caused thickening of the crust under the Morava-Rhodope zone (in Pirin region nowadays it is 49.5–48 km). We present new, preliminary Sr and Nd isotope data and U-Pb zircon ages for Cenozoic magmatic rocks along a NNE–SSW transect through WSW Bulgaria and SE Macedonia, characterized by highly variable crustal thickness

Serum level of the human antimicrobial cathelicidin (hCAP18/LL-37) in patients with psoriasis vulgaris

Introduction: Psoriasis is a chronic immune-mediated inflammatory disease. Human cathelicidin (hCAP18/LL37) has been elucidated recently as a modulator of inflammation in the affected skin. Vitamin D may induce expression of this antimicrobial peptide. Our trial aimed to study the circulating level of hCAP18/LL-37 and to explore its relationship with the severity of psoriasis.Material and Methods: 79 patients with moderate to severe psoriasis (PASI >10) were included in a retrospective analysis. Stored serum samples were used for assessment of 25-hydroxyvitamin D - 25(OH)D and to measure the circulating human cathelicidin (LL-37).Results: In a study group of 79 patients we assessed mean level of 25(OH)D of 30.25 nmol/l (95% CI 25.87 - 34.62 nmol/l). Mean circulating cathelicidin was 27.17 ng/ml (95% CI 21.52 - 32.83 ng/ml). Only 8.9% of patients had LL-37 level > 54 ng/ml. Although circulating LL-37 was lower in severe psoriasis than in moderate psoriasis (24.33 ng/ml vs. 31.14 ng/ml), the variation is nonsignificant. We further evaluated the association of LL-37 with both PASI score and 25(OH)D concentration in the subgroup of patients with vitamin D deficiency (n=39). It was interesting to find a significant correlation between the level of LL-37 and 25(OH)D (r=0.38, p=0.017) and inverse association between the level of LL-37 and PASI (r= -0.30, p=0.06).Conclusion: In this pilot trial we assessed low serum levels of cathelicidin antimicrobial peptide in the patients with psoriasis. LL-37 may be discussed as related to PASI and 25(OH)D in a subgroup of psoriatic patients with vitamin D deficiency

PARalyzer: definition of RNA binding sites from PAR-CLIP short-read sequence data

Crosslinking and immunoprecipitation (CLIP) protocols have made it possible to identify transcriptome-wide RNA-protein interaction sites. In particular, PAR-CLIP utilizes a photoactivatable nucleoside for more efficient crosslinking. We present an approach, centered on the novel PARalyzer tool, for mapping high-confidence sites from PAR-CLIP deep-sequencing data. We show that PARalyzer delineates sites with a high signal-to-noise ratio. Motif finding identifies the sequence preferences of RNA-binding proteins, as well as seed-matches for highly expressed microRNAs when profiling Argonaute proteins. Our study describes tailored analytical methods and provides guidelines for future efforts to utilize high-throughput sequencing in RNA biology. PARalyzer is available at http://www.genome.duke.edu/labs/ohler/research/PARalyzer/