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Biclustering is an important tool in microarray analysis when only a subset of genes co-regulates in a subset of conditions. Different from standard clustering analyses, biclustering performs simultaneous classification in both gene and condition directions in a microarray data matrix. However, the biclustering problem is inherently intractable and computationally complex. In this paper, we present a new biclustering algorithm based on the geometrical viewpoint of coherent gene expression profiles. In this method, we perform pattern identification based on the Hough transform in a column-pair space. The algorithm is especially suitable for the biclustering analysis of large-scale microarray data. Our studies show that the approach can discover significant biclusters with respect to the increased noise level and regulatory complexity. Furthermore, we also test the ability of our method to locate biologically verifiable biclusters within an annotated set of genes. 相似文献
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Detection and taxonomic placement of endophytic fungi within frond tissues of Livistona chinensis based on rDNA sequences. 总被引:9,自引:0,他引:9
The 5.8S gene and flanking internal transcribed spacers (ITS1 and ITS2) of the rDNA were amplified from total DNA extracted from frond tissues of Livistona chinensis with universal and fungal-specific primers. These amplified fragments were cloned and sequenced. Phylogenetic analysis based on the 5.8S gene sequences indicated that the six clone sequences obtained were of different origins. Five sequences, P1-9, P2-6, P4-4, P4-5, and P4-7, belonged to the fungi and one sequence, P3-2, belonged to the plants. P1-9 was inferred to belong to the Basidiomycota based on the phylogenetic analysis of the 5.8S gene sequences but could not be identified to lower taxonomic levels. Further identification of the other four fungal clones to lower taxonomic levels was attempted based on phylogenetic analysis and sequence comparison of both the conserved 5.8S gene and the variable ITS regions. The origin of P2-6 was identified to be Glomerella and its anamorph Colletotrichum, the origins of P4-5 and P4-7 were Mycosphaerella and its anamorph Cladosporium, and the origin of P4-4 was the Herpotrichiellaceae. The direct approach to detection and taxonomic placement of endophytic fungi within host tissue without the need for conventional in vitro culturing is discussed. 相似文献
75.
H D Van Liew 《Journal of applied physiology》1968,25(5):575-580
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The fouling tendencies of seven commercial antifoam agents used with microfiltration membranes were investigated in a stirred cell. Parameters such as viscosity, oil droplet size distribution, contact angle, work of adhesion (W(a)), membrane type, operating pressure, and feed concentration were examined. The results show that a silicone-based antifoam, G832, gave a significantly lower flux (=100 L h(-1) m(-2)) than the polypropylene glycol antifoam PPG2000 (1500-2500 L h(-1) m(-2)) over the concentrations from 0.5 to 4.0 mL L(-1) at 50 kPa, 700 rpm, and 25 degrees C. The significantly lower flux attained by the antifoam G832 was attributed to a number of factors, such as its greater viscosity (1.25 x 10(-3) kg m(-1) s(-1) compared with 1.05 x 10(-3) kg m(-1) s(-1) for PPG2000), a smaller average oil droplet size (0.28 vs. 0.65 mum) comparable to the membrane pore size distribution (0.26-0.62 mum), a higher contact angle (98 vs. 51 degrees ); and a significantly larger value of work of adhesion (26.0 vs. 0.81 mN m(-1)). The different magnitudes of membrane adsorption by these antifoam agents, as reflected by their values of work of adhesion, were also observed in the field emission scanning electronic microscopy photographs. In terms of membrane type, the inorganic Anopore alumina membrane was found to offer a higher PPG flux than the organic Millipore polyvinyl difluoride (PVDF) membranes (both hydrophilic and hydrophobic). Furthermore, the mixed-type antifoams (B5600, B426, and G832) were found to give an increased hydraulic resistance and fouling percentage with an increase in pressure or feed concentration. Conversely for PPG2000, a reduction of the hydraulic resistance and fouling percentage was observed with increases of these two parameters. (c) 1997 John Wiley & Sons, Inc. Biotechnol Bioeng 56: 89-98, 1997. 相似文献
78.
The ability of different classes of passively administered guinea pig antibody (γ1, γ2, and IgM) to regulate humoral and cell-mediated immunity to flagellin, polymerized flagellin (POL), and sheep red blood cells (SRBC) was investigated in rats. It was found that at high concentrations, all classes of antibody suppressed the primary antibody responses and usually enhanced the delayed-type hypersensitivity induced by the three antigens. With flagellin and SRBC, the different classes of passive antibody varied in their suppressing and enhancing properties, being in the order: γ2 > γ1 = IgM. At low concentrations, γ1 and IgM enhanced the primary antibody response and suppressed the delayed hypersensitivity induced by flagellin. Such an effect was not observed with either POL or SRBC. Priming for a secondary antibody response was less readily suppressed by all classes of passive antibody. The removal of macrophage cytophilic antibody from γ2 converted this antibody to a preparation (γ2 absorbed) which had effects on humoral and cell-mediated immunity approaching that of γ1 antibody. 相似文献
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