• sequence homology results are described in the Technical Appendix . (cdc.gov)
  • The aim of this study was to identify and compare regions of nucleotide sequence homology between similar genes that are abundantly expressed and maternally transmitted during Drosophila oogenesis. (marquette.edu)
  • Roughly 25.4% of the whole-insect genome appears to encode long interspersed nuclear elements (LINEs), and a total of 11,901 protein sequences predicted by automated gene finding exhibited homology with reference sequences in the NCBI NR and/or UniProtKB databases at the most stringent similarity cutoff level (i.e., the gold tier). (usda.gov)
  • Clonalilty and sequence similarity was determined by PCR followed by sequencing and comparing immunoglobulin heavy chain (IgH) gene rearrangement sequences to germline sequences and to each other. (bmj.com)
  • The chimp sequences were subsequently implicated by personal correspondence with NCBI staff and supporting data from this study to be pre-screened for some level of homology to the human genome. (icr.org)
  • When confronted with the task of finding homology to large numbers of sequences, database searching tools such as Blast and Fasta generate prohibitively large amounts of information. (aaai.org)
  • Including such artifacts can result in similarity between non-homologous sequences. (berkeley.edu)
  • The amount of variations affecting dispensable genes varies and the similarity between homologous sequences tends to decrease according to their phylogenetic distance. (biomedcentral.com)
  • When closely related organisms are analyzed, reasonable thresholds on sequences similarity are applied to recognize gene families. (biomedcentral.com)
  • Southern blot analysis indicated that this gene shared limited nucleotide similarity with several other Drosophila genomic sequences. (marquette.edu)
  • Additionally, five representative, cross hybridizing genomic clones were isolated based upon 3$\sp\prime$ nucleotide similarity with 21C cDNA sequences. (marquette.edu)
  • 1984). These results suggest that the 3$\sp\prime$ sequences common to the genomic clones define a subset of Drosophila ribosomal proteins that share similar functional residues. (marquette.edu)
  • Errors may be the result of poor indexing of sequences deposited in sequence databases or inaccurate estimation of the degree of genomic polymorphisms within a species and between closely related species. (cdc.gov)
  • The first sequence targeted internal transcribed spacer regions of ribosomal genes and revealed up to 100% homology with D. immitis sequences from GenBank, whereas a maximum homology of 80% was observed with D. repens sequences from GenBank. (cdc.gov)
  • For both analyzed targets, GenBank contained several sequences for D. immitis and D. repens that were deposited by various investigators, and all sequences yielded consistent results. (cdc.gov)
  • Homology candidate relations are integrated into a global network and groups of homologous genes are extracted by applying a community detection algorithm. (biomedcentral.com)
  • Homologous genes can be distinguished into paralogous, when homology occurs within the same genome, or orthologous, when homology occurs between different genomes. (biomedcentral.com)
  • These results were confirmed by transcriptomic analyses that highlighted the specific genes involved in these cell death pathways. (stanford.edu)
  • The structural similarity is particularly interesting given recent reports of three new genes with similarities to PrPs found in Fugu (PrP-like, PrP-461/stPrP-1 and stPrP-2) and other fish, but for which direct evolution to higher vertebrate PrPs is unlikely and for which no other mammalian homologues have been found. (nih.gov)
  • Homologous traits are similarities caused by common ancestry. (wikipedia.org)
  • Two homologous nickel-iron hydrogenases, HupSL and HydSL from the photosynthetic purple sulfur bacterium Thiocapsa roseopersicina, differ substantially in their thermal stabilities despite the high sequence similarity between them. (nih.gov)
  • denature The "unfolding" of a protein resulting in a lessening of its biological properties. (wikipedia.org)
  • A very successful means of inferring the function of a previously unannotated protein is via sequence similarity with one or more proteins whose functions are already known. (columbia.edu)
  • The resulting algorithm, when tested on its ability to recognize previously unseen families from the SCOP database, yields significantly better remote protein homology detection than SVM-Fisher, profile HMMs and PSI-BLAST. (columbia.edu)
  • As part of a directed effort to discover novel G protein-coupled receptors through homology searching of expressed sequence tag databases, we identified a partial clone (GPCR97) that had significant homology to biogenic amine receptors. (aspetjournals.org)
  • The GPCR97 clone was used to probe a human thalamus library, which resulted in the isolation of a full-length clone encoding a putative G protein-coupled receptor. (aspetjournals.org)
  • Computer analysis of the DNA sequence of the 21C cDNA revealed a 76 percent 3$\sp\prime$ coding sequence similarity with the Drosophila acidic ribosomal protein gene, A1 (Qian et al. (marquette.edu)
  • The relationship can be one of several types, including protein-level homology, similarity of gene expression profiles, or genomic proximity. (ucsc.edu)
  • Based on the results of this analysis, we also predict that the budding yeast arsenate resistance protein Acr2 and the ORF Ygr203w encode protein phosphatases with catalytic properties similar to that of the Cdc25 family. (embl.de)
  • The results are in accord with the general observation that with increasing temperature, the role of electrostatic interactions in protein stability increases. (nih.gov)
  • How to Measure the Similarity Between Protein Ligand-binding Sites. (uni-marburg.de)
  • Efficient Similarity Retrieval for Protein Binding Sites based on Histogram Comparison. (uni-marburg.de)
  • Nearly all proteins have structural similarities with other proteins, and in some of these cases, share a common evolutionary origin. (berkeley.edu)
  • The results of 3D-QSAR and docking studies validate each other and provided insight into the structural requirements for activity of this class of molecules as Raf-1 inhibitors. (unboundmedicine.com)
  • In this work, homology models of both proteins were constructed and analyzed for a number of structural properties. (nih.gov)
  • This result together with some common structural features led to the suggestive hypothesis of a possible functional link between mammalian PrP and Sho proteins. (nih.gov)
  • The aim was to describe in detail some structural characteristics of TcMPX and compare it with several PRXs to find possible similarities and repositioning the antibiotic Thiostrepton as a potential inhibitor molecule. (bvsalud.org)
  • The homology model suggests a high structural similarity with human PRX3. (bvsalud.org)
  • Here we show that these structural homologies extend to functional similarities. (mpg.de)
  • Here, we characterized neuronal death in B. schlosseri, a marine colonial tunicate that shares substantial genomic homology with mammals and has a life history in which controlled neurodegeneration happens simultaneously in the brains of adult zooids during a cyclical phase named takeover. (stanford.edu)
  • The worm reported in our article could conceivably belong to a species that differs slightly from both D. immitis and D. repens , displaying morphologic similarities with D. repens but being more closely associated with D. immitis at the genomic level. (cdc.gov)
  • Evidence of evolution: Grades 9-12] Similarities among existing organisms provide evidence for evolution. (berkeley.edu)
  • The similarity of appearance by organisms, especially those not closely related. (biological-concepts.com)
  • A more optimized cavity system and amino acid replacements resulting in increased conformational rigidity may also contribute to the higher stability of HydSL. (nih.gov)
  • This article goes beyond the basics to explore the many evolutionary scenarios that result in homoplasies and the many levels at which homologies might occur. (berkeley.edu)
  • As discussed earlier, there are two basic evolutionary explanations for similarities: homology and analogy. (berkeley.edu)
  • This is indeed a problem about a basic question in evolutionary analyses, that is, the statement of homology. (bvsalud.org)
  • There's more to homologies and analogies than the iconic examples (e.g., the tetrapod limb) found in every high school textbook. (berkeley.edu)
  • Evidence of evolution: Grades 9-12] Anatomical similarities of living things reflect common ancestry. (berkeley.edu)
  • These results are more clearly in line with the large anatomical and behavioral differences observed between human and chimp. (icr.org)
  • Homology calls are sourced from the Alliance of Genome Resources . (yeastgenome.org)
  • Pan-genome approaches afford the discovery of homology relations in a set of genomes, by determining how some gene families are distributed among a given set of genomes. (biomedcentral.com)
  • A challenge on this field is that of designing fast and adaptive similarity measures in order to find a suitable pan-genome structure of homology relations. (biomedcentral.com)
  • Efforts to update the reporting system initiated in the early 2000s (i.e., simplification of reporting forms and transition to electronic reporting) resulted in a substantial increase in reporting compared with the late 1990s. (cdc.gov)
  • Homology analysis showed the highest similarity to M2 muscarinic acetylcholine receptors and overall low homology to all other biogenic amine receptors. (aspetjournals.org)
  • The studies include Comparative Molecular Field Analysis (CoMFA) and Comparative Molecular Similarity Indices Analysis (CoMSIA). (unboundmedicine.com)
  • The comparison of the models reveals that the higher stability of HydSL can be attributed to increased inter-subunit electrostatic interactions: the homology models reliably predict that HydSL contains at least five more inter-subunit ion pairs than HupSL. (nih.gov)
  • HSPcrunch embodies rules on detecting distant similarities when pairs of weak matches are consistent with a larger gapped alignment, i.e. when Blast has broken a longer gapped alignment up into smaller ungapped ones. (aaai.org)
  • This way, more distant similarities can be detected with no or little side-effects of more spurious matches. (aaai.org)
  • However, when distant genomes are compared, global thresholds result less feasible. (biomedcentral.com)
  • Currently, one of the most powerful such homology detection methods is the SVM-Fisher method of Jaakkola, Diekhans and Haussler (ISMB 2000). (columbia.edu)
  • The Alliance provides the results of all methods that have been benchmarked by the Quest for Orthologs Consortium (QfO). (yeastgenome.org)
  • Inductive and deductive methods are rather precise, but can be slow, plodding, expensive, or difficult, and we can often end up with trivial results such as "Oceans are determined to be very large and full of water. (romeofthewest.com)
  • Viral replication cycle resulting in release of new viruses by lysing of the cell. (freezingblue.com)
  • Co-infection with hepatitis B virus (HBV) and hepatitis D virus (HDV) results in hepatitis D, the most severe form of chronic viral hepatitis, frequently leading to liver decompensation and hepatocellular carcinoma. (cdc.gov)
  • This set of rules proved to be robust for most cases and gives high fidelity separation between real homologies and spurious matches. (aaai.org)
  • Curve C* of Figure 1 illustrates the type of retained lung burden seen with excessively high expo- sures that lead to impairment of AM-mediated particle clearance resulting in "lung overload. (cdc.gov)
  • In addition, a homology model of Raf-1 was also constructed using the crystal structure of the kinase domain of B-Raf isoform with one of the most active Raf-1 inhibitors (48) inside the active site. (unboundmedicine.com)
  • The results of best 3D-QSAR model were compared with structure-based studies using the Raf-1 homology model. (unboundmedicine.com)
  • A model of Cdc25 phosphatase catalytic domain and Cdk-interaction surface based on the presence of a rhodanese homology domain. (embl.de)
  • Enterovirus detections by serotype with specimen type, collection date, and demographic information are reported monthly by participating laboratories to CDC, which summarizes the data and disseminates the results. (cdc.gov)
  • Toxicologists and risk asses- sors are faced with a series of judgments when deciding whether to use the animal data and then with various extrapolations if the animal results are used. (cdc.gov)
  • We also constructed, by homology modeling, a theoretical structure of the pUL105 N-terminal domain which indicates that the mutated conserved amino acids in this domain could be involved in ATP hydrolysis. (frontiersin.org)
  • Pleckstrin homology-like domain. (umbc.edu)
  • This is also important in order to hypothesize primary homologies ( sensu de Pinna, 1991, 1997), that is, topographical similarities based on Remane's criteria of homology (adapted to the behavioural domain - see Greene, 1994). (bvsalud.org)
  • The method, SVM-pairwise, uses a pairwise sequence similarity algorithm such as Smith-Waterman in place of the HMM in the SVM-Fisher method. (columbia.edu)
  • The commercial results of the two French carmakers were published last week and, behind the facade homology represented by the similarity of volumes ( 3.75 million for Renault and 3.48 million for PSA ) and their decline (-3.4% for Renault and -10% for PSA), the figures underline the significant differences between the two manufacturers. (gerpisa.org)
  • All of these domains have a PH fold, but lack significant sequence similarity. (umbc.edu)
  • In this thesis an approximation method is discussed that provides similar results to leave-one-out cross-validation but is less time-consuming. (tudelft.nl)
  • This system with the two main parts and their groups makes it possible to combine two (or more) distinct searches into one search result, while being flexible in removing results from the final list. (diva-portal.org)
  • Let $\mathcal{L}$ be the noncrossing partition lattice associated to a finite Coxeter group $W$. In this paper we construct explicit bases for the top homology groups of intervals and rank-selected subposets of $\mathcal{L}$. We define a multiplicative structure on the Whitney homology of $\mathcal{L}$ in terms of the basis, and the resulting algebra has similarities to the Orlik-Solomon algebra. (arxiv.org)
  • Results from this study unequivocally indicate that the human and chimpanzee genomes are at least 10-12% less identical than is commonly claimed. (icr.org)
  • This similarity was corroborated by cross-recognition using an anti-human PRX antibody. (bvsalud.org)
  • We have also moved cloning artifacts that we could identify (e.g., expression tags) to a new class ( l: Artifacts ) in order to separate them from the homology-based curations in the rest of the SCOPe hierarchy. (berkeley.edu)
  • It may be the result of shared descent from a common ancestor . (wikipedia.org)
  • However it is still not crystallized for birds and only advanced homology models are available. (nature.com)
  • Our results show that Thiostrepton reduces the proliferation of T. cruzi epimastigotes, cell-derived trypomastigotes, and blood trypomastigotes with low cytotoxicity on Vero cells. (bvsalud.org)
  • Evidence of evolution: Grades 9-12] Developmental similarities of living things often reflect their relatedness. (berkeley.edu)
  • Despite the increasing understanding of female reproduction, defined causes or mechanisms resulting in primary ovarian insufficiency remain largely unknown [ 7 ]. (hindawi.com)
  • Sequence similarity between the clonal bands in HT and subsequently developed thyroid lymphoma is supportive of the argument that primary thyroid lymphoma may evolve from HT. (bmj.com)
  • The results range from the spectacularly illuminating to the frankly weird. (geocitiessites.com)
  • At least one clonal band in HT had more than 96% similarity (homology) with the clonal band of lymphoma in all three cases. (bmj.com)
  • Results:- Time of exposure is 0-5 years and in most of the cases the forced expiratory volume in one second is 70% + 5 but peak expiratory flow rate is markedly decreased which shows that lung functions are deteriorated to a considerable extent. (who.int)
  • The results found relevant by the system are presented in a very concise and clear way, so that the homology can be assessed with minimum effort. (aaai.org)
  • For a result to be included in the search result, is it required to fit all added including parameters (in at least one group) and not fit all parameters in one of the excluding groups. (diva-portal.org)