scholarly journals Improving the Exploration of Tag Spaces Using Automated Tag Clustering

2011 ◽  
pp. 274-288 ◽  
Author(s):  
Joni Radelaar ◽  
Aart-Jan Boor ◽  
Damir Vandic ◽  
Jan-Willem van Dam ◽  
Frederik Hogenboom ◽  
...  
Keyword(s):  
Tag Clustering

scholarly journals Seipin traps triacylglycerols to facilitate their nanoscale clustering in the ER membrane

2020 ◽  
Author(s):  
Xavier Prasanna ◽  
Veijo T. Salo ◽  
Shiqian Li ◽  
Katharina Ven ◽  
Helena Vihinen ◽  
...  
Keyword(s):  
Lipid Droplet ◽  
In Silico ◽  
Lipid Membrane ◽  
Wild Type ◽  
Binding Interface ◽  
Biomolecular Simulations ◽  
Hydrophobic Helices ◽  
Tag Clustering ◽  
Er Membrane ◽  
In Cells

AbstractSeipin is a disk-like oligomeric ER protein important for lipid droplet (LD) biogenesis and triacylglycerol (TAG) delivery to growing LDs. Here we show through biomolecular simulations bridged to experiments that seipin can trap TAGs in the ER bilayer via the luminal hydrophobic helices of the protomers delineating the inner opening of the seipin disk. This promotes the nanoscale sequestration of TAGs at a concentration that by itself is insufficient to induce TAG clustering in a lipid membrane. We identify Ser166 in the α3 helix as a favored TAG occupancy site and show that mutating it compromises the ability of seipin complexes to sequester TAG in silico and to promote TAG transfer to LDs in cells. While seipin-S166D mutant colocalizes poorly with promethin, the association of nascent wild-type seipin complexes with promethin is promoted by TAGs. Together, these results suggest that seipin traps TAGs via its luminal hydrophobic helices, serving as a catalyst for seeding the TAG cluster from dissolved monomers inside the seipin ring, thereby generating a favorable promethin binding interface.

KIPTC: a kernel information propagation tag clustering algorithm

2013 ◽  
Vol 45 (1) ◽  
pp. 95-112 ◽  
Author(s):  
Guandong Xu ◽  
Yu Zong ◽  
Ping Jin ◽  
Rong Pan ◽  
Zongda Wu
Keyword(s):  
Clustering Algorithm ◽  
Information Propagation ◽  
Tag Clustering

Towards Ontological Structures Extraction from Folksonomies

2014 ◽  
Vol 10 (4) ◽  
pp. 40-50
Author(s):  
Marouf Zahia ◽  
Benslimane Sidi Mohamed
Keyword(s):  
Web 2.0 ◽  
Efficient Solution ◽  
Integrated Approach ◽  
Generation Process ◽  
Ontology Evolution ◽  
Tag Clustering ◽  
The Web

Folksonomies are one of the technologies of Web 2.0 that permit users to annotate resources on the Web. In this paper, the authors propose an integrated approach to extract ontological structures from unstructured and semi-structured resources. Our proposal overcome limitations of existing approaches. It gives a formal, simple, and efficient solution to the tag clustering and disambiguation problem. Moreover, their approach doesn't need any ontology as an upper guide during the generation process. The generated ontology can be used to enhance various tasks such as ontology evolution and enrichment.

scholarly journals Association of Tongue Bacterial Flora and Subtypes of Liver-Fire Hyperactivity Syndrome in Hypertensive Patients

2018 ◽  
Vol 2018 ◽  
pp. 1-10 ◽  
Author(s):  
Jie-wei Luo ◽  
Cong-huai Lin ◽  
Yao-bin Zhu ◽  
Xing-yu Zheng ◽  
Yong-xi Wu ◽  
...  
Keyword(s):  
Evolutionary History ◽  
Phylogenetic Diversity ◽  
Structural Changes ◽  
Bitter Taste ◽  
Bacterial Flora ◽  
Alpha Diversity ◽  
Tongue Coating ◽  
Operational Taxonomic Units ◽  
Oral Symptoms ◽  
Tag Clustering

Structural changes in symbiotic human microorganisms can affect host phenotype. Liver-fire hyperactivity syndrome (LFHS) presents as bitter taste, halitosis, xerostomia, odontalgia, and other oral symptoms. LFHS is associated with hypertension (EH). In this study, tongue flora was analyzed to further understand the intrinsic relationship between tongue flora and LFHS. Samples of tongue coating, from 16 patients with EH-LFHS, 16 with EH-non-LFHS, and 16 controls, were obtained; then, 16S rRNA variable (V3-V4) regions were amplified and sequenced by MiSeq PE300 Sequencing. Tag clustering and Operational Taxonomic Units (OTUs) abundance analysis were used to compare the OTU sequence with the 16S database. The species were classified, and diversity and structure of the bacterial flora were compared between the three groups. Alpha diversity analysis, including Observed Species index and Chao index, indicated significantly higher richness of species in patients with EH-LFHS (p<0.05). Higher phylogenetic diversity, in patients with EH-non-LFHS, indicates greater differences in evolutionary history than in patients with EH-LFHS. Streptococcus, Rothia, Neisseria, and Sphingomonas were the most prevalent in patients with EH-LFHS, differed from the other two groups. This indicates that richer bacterial diversity, and structure associated with EH-LFHS, may affect the occurrence, development, and outcome of hypertension and syndrome subtypes recognized by TCM.

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