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991.
Benjamin S. Johnson Lexie Chafin Daniela Farkas Jessica Adair Ajit Elhance Laszlo Farkas Joseph S. Bednash James D. Londino 《Molecular & cellular proteomics : MCP》2022,21(7):100256
Identifying protein–protein and other proximal interactions is central to dissecting signaling and regulatory processes in cells. BioID is a proximity-dependent biotinylation method that uses an “abortive” biotin ligase to detect proximal interactions in cells in a highly reproducible manner. Recent advancements in proximity-dependent biotinylation tools have improved efficiency and timing of labeling, allowing for measurement of interactions on a cellular timescale. However, issues of size, stability, and background labeling of these constructs persist. Here we modified the structure of BioID2, derived from Aquifex aeolicus BirA, to create a smaller, highly active, biotin ligase that we named MicroID2. Truncation of the C terrminus of BioID2 and addition of mutations to alleviate blockage of biotin/ATP binding at the active site of BioID2 resulted in a smaller and highly active construct with lower background labeling. Several additional point mutations improved the function of our modified MicroID2 construct compared with BioID2 and other biotin ligases, including TurboID and miniTurbo. MicroID2 is the smallest biotin ligase reported so far (180 amino acids [AAs] for MicroID2 versus 257 AAs for miniTurbo and 338 AAs for TurboID), yet it demonstrates only slightly less labeling activity than TurboID and outperforms miniTurbo. MicroID2 also had lower background labeling than TurboID. For experiments where precise temporal control of labeling is essential, we in addition developed a MicroID2 mutant, termed lbMicroID2 (low background MicroID2), that has lower labeling efficiency but significantly reduced biotin scavenging compared with BioID2. Finally, we demonstrate utility of MicroID2 in mass spectrometry experiments by localizing MicroID2 constructs to subcellular organelles and measuring proximal interactions. 相似文献
992.
Jia Xu Xinyu Guan Xiaodong Jia Hongyan Li Ruibing Chen Yinying Lu 《Molecular & cellular proteomics : MCP》2022,21(8):100255
Hepatocellular carcinoma (HCC) is the third most common cause of cancer-related death worldwide with limited therapeutic options. Comprehensive investigation of protein posttranslational modifications in HCC is still limited. Lysine acetylation is one of the most common types of posttranslational modification involved in many cellular processes and plays crucial roles in the regulation of cancer. In this study, we analyzed the proteome and K-acetylome in eight pairs of HCC tumors and normal adjacent tissues using a timsTOF Pro instrument. As a result, we identified 9219 K-acetylation sites in 2625 proteins, of which 1003 sites exhibited differential acetylation levels between tumors and normal adjacent tissues. Interestingly, many novel tumor-specific K-acetylation sites were characterized, for example, filamin A (K865), filamin B (K697), and cofilin (K19), suggesting altered activities of these cytoskeleton-modulating molecules, which may contribute to tumor metastasis. In addition, we observed an overall suppression of protein K-acetylation in HCC tumors, especially for enzymes from various metabolic pathways, for example, glycolysis, tricarboxylic acid cycle, and fatty acid metabolism. Moreover, the expression of deacetylase sirtuin 2 (SIRT2) was upregulated in HCC tumors, and its role of deacetylation in HCC cells was further explored by examining the impact of SIRT2 overexpression on the proteome and K-acetylome in Huh7 HCC cells. SIRT2 overexpression reduced K-acetylation of proteins involved in a wide range of cellular processes, including energy metabolism. Furthermore, cellular assays showed that overexpression of SIRT2 in HCC cells inhibited both glycolysis and oxidative phosphorylation. Taken together, our findings provide valuable information to better understand the roles of K-acetylation in HCC and to treat this disease by correcting the aberrant acetylation patterns. 相似文献
993.
《Saudi Journal of Biological Sciences》2022,29(5):3528-3538
Mentha longifolia is an important medicinal and aromatic perennial herb that exhibits wide distribution range from sub-tropical to temperate regions. In the present study, agro-morphological traits and genetic differences in 19 different populations of M. longifolia were studied to evaluate the level and extent of its diversity. Analysis of variance (ANOVA) showed that the different phenotypic characters show considerable differences among various populations and was significant at p < 0.05. Molecular diversity analysis performed by using arbitrary amplified eleven ISSR primers generated a total of 121 amplicons that range within the size of 200–2500 base pairs (bp). Each primer on average generated 11 amplicons with percentage polymorphism being 100. The analysis of molecular variance (AMOVA) showed more (64%) among population genetic diversity and less (36%) within the populations. Greater genetic differentiation (Gst = 0.6852) among these populations occurs due to low gene flow (Nm = 0.2297) and greater habitat variability. Geographic and genetic distances were positively correlated according to Mantel’s test. In order to remove any kind of biases, we used R software to perform cluster and redundancy analysis to analyse the extent of relatedness among studied populations. In terms of morphological and molecular aspects, the populations were grouped into four and five clusters respectively based on hierarchical clustering method. The results demonstrated that M. longifolia displays a great degree of morphological and genetic variation and can be utilized in breeding, genetic improvement, and gene bank conservation programmes in future. 相似文献
994.
Matthew P. Jackson Roger J. Neill Alison D. O'Brien Randall K. Holmes John W. Newland 《FEMS microbiology letters》1987,44(1):109-114
The nucleotide sequence of the Shiga-like toxin type II (SLT-II) structural genes cloned from bacteriophage 933W of the enterohemorrhagic Escherichia coli O157:H7 strain 933 was determined. This sequence was compared with the published sequence for the structural genes of the antigenically distinct Shiga-like toxin type I (SLT-I) encoded by bacteriophage 933J. The SLT-I and SLT-II structural genes shared 58% overall nucleotide and 56% amino acid sequence homologies. The A and B subunits of SLT-I and SLT-II were nearly identical in size and had similar secondary structures and hydropathy plots. The regulation proposed for the SLT-II operon is similar to that previously proposed for SLT-I. 相似文献
995.
Giancarlo Bozzo Michela Maria Dimuccio Gaia Casalino Edmondo Ceci Marialaura Corrente 《Saudi Journal of Biological Sciences》2022,29(8):103368
Protothecosis is a potential zoonosis related to bovine mastitis. In several countries, a higher incidence of protothecal bovine mastitis that is being recorded and the resistance of Prototheca species to various factors (chlorine, high temperatures, antimicrobial and antiseptic treatments, pH variations), make it difficult to control its spread among farms. The authors aim to describe the infection caused by microalgae, focusing on the problems within cattle farms and proposing new approaches to farm management, based on Regulation (EU) No 2016/429 on transmissible animal diseases. This new flexible approach, based on risk analysis, is a further tool in protecting against Prototheca species. The list of transmissible animal diseases under Regulation (EU) No 2016/429 includes those caused by microorganisms resistant to antimicrobials, which can have important implications for human and animal health, feed and food safety. This approach would involve a series of changes to the rules used for Official Controls (Regulation (EU) No 2017/625) moving from the concept of the food chain to that of the agri-food chain. 相似文献
996.
Determination of the complete nucleotide sequence of pNS1, a staphylococcal tetracycline-resistance plasmid propagated in Bacillus subtilis 总被引:1,自引:0,他引:1
Norihisa Noguchi Takashi Aoki Masanori Sasatsu Megumi Kono Kazuo Shishido Tadahiko Ando 《FEMS microbiology letters》1986,37(3):283-288
Abstract The complete nucleotide sequence of pNS1 (3879 bp), a tetracycline-resistance (TcR ) plasmid drived from staphylococcal plasmid pTP5, has been determined and compared with that of the staphylococcal TcR plasmid pT181 [6]. The nucleotide sequences of the 2 plasmids are in agreement, except for 18 nucleotides, but these differences are significant in that they give rise to new open reading frames (ORFs). A short ORF-D is found in the copy control region, and the TcR region contains a single large ORF-A, that encodes the Tet protein (50 kDa). The upstream region of ORF-A contains 3 inverted repeat sequences, which can generate structures very similar in conformation of the structure of the control region of the inducible erythromycin-resistance gene of pE194. 相似文献
997.
998.
999.
青藏高原1979-2007年间的积雪变化 总被引:4,自引:0,他引:4
利用雪深被动微波遥感数据产品,对青藏高原1979—2007年积雪深度、积雪日数的分布变化及其趋势进行了分析。结果表明:青藏高原积雪日数、积雪深度和海拔三者之间在空间上具有显著正相关;青藏高原积雪在1988年发生突变,该年前后积雪分布有显著不同,这与20世纪80年代中后期青藏高原由暖干时期进入暖湿时期有关;将青藏高原按夏季水汽来源不同将其分为南北两部分,发现29年来北部积雪日数变化与全国积雪变化相反呈极显著增加趋势(R2=0.39,P0.01),以1.40 d/a的趋势增加,主要原因是西北部地区冬季积雪日数增加;南部积雪深度与全国积雪变化一致呈极显著减少趋势(R2=0.24,P0.01),以-0.04 cm/a的趋势减少,主要原因是东南部春、夏、秋三季积雪深度减少。 相似文献
1000.
基于Holdridge和CCA分析的中国生态地理分区的比较 总被引:1,自引:0,他引:1
在前人工作基础上,对中国自然地理要素与生态地理区域的关系进行了综合分析,采用全国地形、土壤、气候、植被及遥感植被指数等数据,综合分析中国范围生态地理区域的分异规律,制订了生态地理分区的初步方案,并建立了相应的地理信息系统.基于Holdridge模型和CCA分析划分中国生态地理分区,建立了分区的指标体系,得到中国生态分区的大致界线,初步总结了各生态地理分区的地形、植被、气候等综合自然地理特征,完成对中国区域生态地理分区的划分.基于CCA分析的生态地理的分区,不仅结合自然区划和生态地理两种方法,而且加入了生态群落和遥感数据的综合应用.结果显示,由于受到模型适用性及数据误差的原因,基于CCA分析的结果比Holdridge模型的结果更合理一些. 相似文献