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41.
Variant forms of a group I intron in nuclear small-subunit rRNA genes of the marine red alga Porphyra spiralis var. amplifolia 总被引:3,自引:0,他引:3
A group IC1 intron occurs in nuclear small-subunit (18S) ribosomal RNA (SSU
rRNA) genes of the marine red alga Porphyra spiralis var. amplifolia. This
intron occurs at the same position as the self- splicing group IC1 introns
in nuclear SSU rDNAs of the fungus Pneumocystis carinii and in the green
alga Chlorella ellipsoidea and shares sequence identity with the
Pneumocystis carinii intron in domains L1, P1, P2, and L2, outside the
conserved core. Three size variants, differing in amount of sequence in L1,
exist and are differentially distributed in geographically distinct
populations. Preliminary data suggest that the largest variant can
self-splice in vitro. Short open reading frames are present but do not
correspond to known genes. Repeated nucleotide motifs, reminiscent of
duplicated target sites of transposons or Alu elements, are associated with
the intron and with one of the variant forms of L1. Insertions are present
in nuclear SSU rDNAs of several other Porphyra species and of the red alga
Bangia atropurpurea; insertionless rDNA variants also occur in several
Porphyra species. Our observations are most readily explained by intron
mobility, although it remains unclear how transfer could have been mediated
between genomes of organisms as ecologically diverse as marine red algae,
freshwater green algae, and a mammalian-pathogenic fungus.
相似文献
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Ferry Cornelissen Adriana MC Mus Patrick S Asmawidjaja Jan Piet van Hamburg Joel Tocker Erik Lubberts 《Arthritis research & therapy》2009,11(6):1-13
Introduction
A protein analysis using a mass spectrometry indicated that there are serum proteins showing significant quantitative changes after the administration of infliximab. Among them, connective tissue growth factor (CTGF) seems to be related to the pathogenesis of rheumatoid arthritis (RA). Therefore, this study was conducted to investigate how CTGF is associated with the disease progression of RA.Methods
Serum samples were collected from RA patients in active or inactive disease stages, and before or after treatments with infliximab. CTGF production was evaluated by ELISA, RT-PCR, indirect immunofluorescence microscopy, and immunoblotting. Osteoclastogenesis was evaluated using tartrate-resistant acid phosphatase (TRAP) staining, a bone resorption assay and osteoclasts specific catalytic enzymes productions.Results
The serum concentrations of CTGF in RA were greater than in normal healthy controls and disease controls. Interestingly, those were significantly higher in active RA patients compared to inactive RA patients. Furthermore, the CTGF levels significantly were decreased by infliximab concomitant with the disease amelioration. In addition, tumour necrosis factor (TNF)α can induce the CTGF production from synovial fibroblasts even though TNFα can oppositely inhibit the production of CTGF from chondrocytes. CTGF promoted the induction of the quantitative and qualitative activities of osteoclasts in combination with M-CSF and receptor activator of NF-κB ligand (RANKL). In addition, we newly found integrin αVβ3 on the osteoclasts as a CTGF receptor.Conclusions
These results indicate that aberrant CTGF production induced by TNFα plays a central role for the abnormal osteoclastic activation in RA patients. Restoration of aberrant CTGF production may contribute to the inhibition of articular destruction in infliximab treatment. 相似文献45.
46.
Abstract: The family Phylloporinidae was introduced in the late 19th century to accommodate a small number of Palaeozoic bryozoan genera characterized by irregularly fenestrated colonies generated by anastomosis of unilaminate branches. Among the first named of these genera were Chasmatopora Eichwald, 1855 and Phylloporina Ulrich in Foerste, 1887. The two names have been variously in fashion, and there has been confusion about whether they are subjective synonyms or are distinct genera. This taxonomic confusion has been due in large part to whether the single species (Retepora angulata Hall, 1847) assigned to Phylloporina in Foerste (1887) or the species that Ulrich intended (Retepora trentonensis Nicholson, 1875) is the type species and also because of lack of sufficient information about Foerste’s material to characterize it well. We here redescribe the pertinent species, erect the new species Chasmatopora foerstei for the species that Foerste incorrectly assigned to Phylloporina angulata (Hall), and suggest that Retepora trentonensis Nicholson be retained as type species of Phylloporina based on prevailing usage, until the issue is settled by the International Commission on Zoological Nomenclature. 相似文献
47.
Background
Homology is a crucial concept in comparative genomics. The algorithm probably most widely used for homology detection in comparative genomics, is BLAST. Usually a stringent score cutoff is applied to distinguish putative homologs from possible false positive hits. As a consequence, some BLAST hits are discarded that are in fact homologous. 相似文献48.
49.
Anopheles gambiae genome reannotation through synthesis of ab initio and comparative gene prediction algorithms 总被引:1,自引:0,他引:1
Li J Riehle MM Zhang Y Xu J Oduol F Gomez SM Eiglmeier K Ueberheide BM Shabanowitz J Hunt DF Ribeiro JM Vernick KD 《Genome biology》2006,7(3):R24-12
Background
Complete genome annotation is a necessary tool as Anopheles gambiae researchers probe the biology of this potent malaria vector.Results
We reannotate the A. gambiae genome by synthesizing comparative and ab initio sets of predicted coding sequences (CDSs) into a single set using an exon-gene-union algorithm followed by an open-reading-frame-selection algorithm. The reannotation predicts 20,970 CDSs supported by at least two lines of evidence, and it lowers the proportion of CDSs lacking start and/or stop codons to only approximately 4%. The reannotated CDS set includes a set of 4,681 novel CDSs not represented in the Ensembl annotation but with EST support, and another set of 4,031 Ensembl-supported genes that undergo major structural and, therefore, probably functional changes in the reannotated set. The quality and accuracy of the reannotation was assessed by comparison with end sequences from 20,249 full-length cDNA clones, and evaluation of mass spectrometry peptide hit rates from an A. gambiae shotgun proteomic dataset confirms that the reannotated CDSs offer a high quality protein database for proteomics. We provide a functional proteomics annotation, ReAnoXcel, obtained by analysis of the new CDSs through the AnoXcel pipeline, which allows functional comparisons of the CDS sets within the same bioinformatic platform. CDS data are available for download.Conclusion
Comprehensive A. gambiae genome reannotation is achieved through a combination of comparative and ab initio gene prediction algorithms. 相似文献50.
The XI International Rotifer Symposium was held during 11–18 March, 2006 at the National Autonomous University of Mexico Campus Iztacala located at the North Mexico City (Mexico). These triennial international meetings, first organized in Austria by Late Ruttner-Kolisko in September 1976, are gradually becoming the focal point of discussion and collaboration from rotifer workers across the world. The present XI symposium was attended by 125 participants from 20 nations. During this meeting, different themes of rotifer research from morphology to molecular biology were considered. In addition, there were four invited lectures and four workshops covering different themes of the symposium. During the last 30 years, rotifer research has witnessed gradual shift from the conventional morphological taxonomy to molecular and evolutionary systematics. While the basic rotifer ecological studies continue today, applied areas such as ecotoxicology and aquaculture have taken key roles in the recent meetings. The international rotifer meetings provide ample opportunities not only for exchange of ideas and recent research, but also for material and in establishing inter-personal relationships. Over the last 30 years, the number of participants attending the rotifer meetings has increased. 相似文献