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991.
Number of breeding attempts is a strong correlate of lifetime reproductive success (LRS) in birds, but the relative importance of potentially interacting factors affecting LRS has rarely been fully evaluated. We considered simultaneously five main factors hypothesized to influence LRS (age at first breeding, nesting date, number of breeding attempts, female traits, brood parasitism) by analyzing with path analysis 22-year data sets for 1,279 individually marked females and their offspring in tufted duck (Aythya fuligula), common pochard (A. ferina) and northern shoveler (Anas clypeata). We recaptured marked offspring as breeding adults (n=496 females) and obtained more complete estimates of LRS by incorporating information about banded ducklings of both sexes shot by hunters 12 months after banding (n=138). In tufted ducks and especially pochard (both diving duck species), late-hatched females tended to delay nesting until 2-years old. Most females (tufted duck, 74%; pochard, 71%; shoveler, 59%) apparently produced no breeding-age offspring. Number of breeding attempts (i.e., longevity) was the strongest correlate of LRS in all species, after controlling effects of age at first breeding, relative nest initiation date, wing length and body mass. Percentage of females producing recruits increased gradually with number of breeding attempts for all three species. Also, as expected, females nesting early in the breeding season had higher LRS than late-nesting individuals. In shoveler, female-specific characteristics of relatively longer wings and heavier late incubation body mass had positive effects on LRS, the latter feature being more common in 2-year-old nesters. In diving ducks, no relationships were detected between LRS and female-specific traits like wing length or body mass, and nor did acceptance of parasitic eggs have any deleterious impact on fitness estimates. Overall, number of fledged ducklings and LRS were related in tufted duck, weakly associated in pochard and unrelated in shoveler, implying that fledging success is not always a reliable measure of LRS. 相似文献
992.
OBJECTIVE: To test DNA methylation profiling in detection of urothelial carcinoma in urine. STUDY DESIGN: Thirty-three bladder specimens were analyzed for the DNA p16INK4a, RASSF1, APC, GSTP, E-Cad and CyclinD2 genes to determine if there is a difference in gene methylation between benign and malignant cases. Urine samples were analyzed in a feasibility study. Finally, methylation profiles of urine samples were obtained and compared with follow-up biopsy diagnoses. RESULTS: We found methylated genes in 18% benign, 37% urothelial carcinoma in situ and 93% infiltrating urothelial carcinoma cases (p = 0.001). Methylation profiles from the 18 urine samples revealed a significantly higher prevalence of methylated genes in carcinoma cases than benign cases (100% vs. 50%, p = 0.025). We analyzed methylation profiles in 37 cytologically atypical urine samples with malignant or benign diagnosis on surgical follow-up andfound that only APC (55% in malignant vs. 0% in benign, p=0.025) and CyclinD2 were differentially methylated (35% in malignant vs. 0% in benign, p=0.2) while p14ARF, p16INK4a, RASSF1, GSTP and E-Cad had similar methylation profiles. CONCLUSION: These results suggest that methylation of p14ARF, p16INK4a, RASSF1, GSTP and E-Cad genes may not accurately identify carcinoma, but methylated APC and CyclinD2 might be useful biomarkers for urothelial carcinoma in urine. 相似文献
993.
Gatlin CL Pieper R Huang ST Mongodin E Gebregeorgis E Parmar PP Clark DJ Alami H Papazisi L Fleischmann RD Gill SR Peterson SN 《Proteomics》2006,6(5):1530-1549
The emergence of highly virulent community acquired Staphylococcus aureus and continued progression of resistance to multiple antimicrobials, including methicillin and vancomycin, marks the reemergence of S. aureus as a serious health care threat. Investigation of proteins localized to the cell surface could help to elucidate mechanisms of virulence and antibiotic resistance in S. aureus. In this study, proteomic profiling methods were developed to solubilize, display, and evaluate abundance levels of proteins present in the supernatants of the lysostaphin-digested cell envelope from cultured vancomycin-intermediate S. aureus (VISA) cells. Combining approaches of 2-DE or chromatographic separation of proteins with MS analyses resulted in the identification of 144 proteins of particular interest. Of these proteins, 48 contained predicted cell wall localization or export signal motifs, including 14 with distinct covalent peptidoglycan-anchor sites, four of which are uncharacterized to date. One of the two most abundant cell envelope proteins, which showed remarkably high variations in MW and pI in the 2-DE gel display, was the S. aureus surface protein G. The display of numerous secreted proteins that are not covalently cell wall-anchored, suggests that, in the exponential growth phase, secreted proteins can be retained physiologically in the cell envelope and may interact with cell wall-anchored proteins and carbohydrate structures in a manner yet to be determined. The remaining 96 proteins, devoid of recognizable motifs, were repeatedly profiled in the VISA cell envelope fractions. We describe a novel semiquantitative method to determine abundance factors of such proteins in 2-DE gels of cell envelope fractions relative to whole cell lysates and discuss these data in the context of true cell envelope localization versus experimentally caused cell lysis. 相似文献
994.
Kiebel GR Auberry KJ Jaitly N Clark DA Monroe ME Peterson ES Tolić N Anderson GA Smith RD 《Proteomics》2006,6(6):1783-1790
Advanced proteomic research efforts involving areas such as systems biology or biomarker discovery are enabled by the use of high level informatics tools that allow the effective analysis of large quantities of differing types of data originating from various studies. Performing such analyses on a large scale is not feasible without a computational platform that performs data processing and management tasks. Such a platform must be able to provide high-throughput operation while having sufficient flexibility to accommodate evolving data analysis tools and methodologies. The Proteomics Research Information Storage and Management system (PRISM) provides a platform that serves the needs of the accurate mass and time tag approach developed at Pacific Northwest National Laboratory. PRISM incorporates a diverse set of analysis tools and allows a wide range of operations to be incorporated by using a state machine that is accessible to independent, distributed computational nodes. The system has scaled well as data volume has increased over several years, while allowing adaptability for incorporating new and improved data analysis tools for more effective proteomics research. 相似文献
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Clark I 《PLoS medicine》2006,3(1):e68; author reply e69
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Jeffrey M. Boyd Daniel D. Clark Melissa A. Kofoed Scott A. Ensign 《The Journal of biological chemistry》2010,285(33):25232-25242
The bacterial metabolism of epoxypropane formed from propylene oxidation uses the atypical cofactor coenzyme M (CoM, 2-mercaptoethanesulfonate) as the nucleophile for epoxide ring opening and as a carrier of intermediates that undergo dehydrogenation, reductive cleavage, and carboxylation to form acetoacetate in a three-step metabolic pathway. 2-Ketopropyl-CoM carboxylase/oxidoreductase (2-KPCC), the terminal enzyme of this pathway, is the only known member of the disulfide oxidoreductase family of enzymes that is a carboxylase. In the present work, the CoM analog 2-bromoethanesulfonate (BES) is shown to be a reversible inhibitor of 2-KPCC and hydroxypropyl-CoM dehydrogenase but not of epoxyalkane:CoM transferase. Further investigations revealed that BES is a time-dependent inactivator of dithiothreitol-reduced 2-KPCC, where the redox active cysteines are in the free thiol forms. BES did not inactivate air-oxidized 2-KPCC, where the redox active cysteine pair is in the disulfide form. The inactivation of 2-KPCC exhibited saturation kinetics, and CoM slowed the rate of inactivation. Mass spectral analysis demonstrated that BES inactivation of reduced 2-KPCC occurs with covalent modification of the interchange thiol (Cys82) by a group with a molecular mass identical to that of ethylsulfonate. The flavin thiol Cys87 was not alkylated by BES under reducing conditions, and no amino acid residues were modified by BES in the oxidized enzyme. The UV-visible spectrum of BES-modifed 2-KPCC showed the characteristic charge transfer absorbance expected with alkylation at Cys82. These results identify BES as a reactive CoM analog that specifically alkylates the interchange thiol that facilitates thioether bond cleavage and enolacetone formation during catalysis. 相似文献