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PubMed2000

Prediction of the coding sequences of unidentified human genes. XVI. The complete sequences of 150 new cDNA clones from brain which code for large proteins in vitro.

We have carried out a human cDNA sequencing project to accumulate information regarding the coding sequences of unidentified human genes. As an extension of the preceding reports, we herein present the entire sequences of 150 cDNA clones of unknown human genes, named KIAA1294 to KIAA1443, from two sets of size-fractionated human adult and fetal brain cDNA libraries. The average sizes of the inserts and corresponding open reading frames of cDNA clones analyzed here reached 4.8 kb and 2.7 kb (910 amino acid residues), respectively. From sequence similarities and protein motifs, 73 predicted gene products were functionally annotated and 97% of them were classified into the following four functional categories: cell signaling/communication, nucleic acid management, cell structure/motility and protein management. Additionally, the chromosomal loci of the genes were assigned by using human-rodent hybrid panels for those genes whose mapping data were not available in the public databases. The expression profiles of the genes were also studied in 10 human tissues, 8 brain regions, spinal cord, fetal brain and fetal liver by reverse transcription-coupled polymerase chain reaction, products of which were quantified by enzyme-linked immunosorbent assay.

Adult↗
PubMed2000

Prediction of the coding sequences of unidentified human genes. XVII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro.

To provide information regarding the coding sequences of unidentified human genes, we have conducted a sequencing project of human cDNAs which encode large proteins. We herein present the entire sequences of 100 cDNA clones of unknown human genes, named KIAA1444 to KIAA1543, from two sets of size-fractionated human adult and fetal brain cDNA libraries. The average sizes of the inserts and corresponding open reading frames of cDNA clones analyzed here were 4.4 kb and 2.6 kb (856 amino acid residues), respectively. Database searches of the predicted amino acid sequences classified 53 predicted gene products into the following five functional categories: cell signaling/communication, nucleic acid management, cell structure/motility, protein management and metabolism. It was also revealed that homologues for 32 KIAA gene products were detected in the databases, which were similar in sequence through almost their entire regions. Additionally, the chromosomal loci of the genes were determined by using human-rodent hybrid panels unless their chromosomal loci were already assigned in the public databases. The expression levels of the genes were monitored in spinal cord, fetal brain and fetal liver, as well as in 10 human tissues and 8 brain regions, by reverse transcription-coupled polymerase chain reaction, products of which were quantified by enzyme-linked immunosorbent assay.

Adult↗
PubMed2000

Prediction of the coding sequences of unidentified human genes. XVIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro.

In our series of human cDNA projects for accumulating sequence information on the coding sequences of unidentified genes, we herein present the entire sequences of 100 cDNA clones of unidentified genes, named KIAA1544 to KIAA1643, from two sets of size-fractionated human adult and fetal brain cDNA libraries. The average sizes of the inserts and corresponding open reading frames of cDNA clones analyzed here reached 4.6 kb and 2.8 kb (930 amino acid residues), respectively. By computer-assisted database search of the deduced amino acid sequences, 48 predicted gene products were classified into the five functional categories of proteins relating to cell signaling/communication, nucleic acid management, cell structure/motility, protein management and metabolism. Homology search against the databases for proteins deduced from yeast, nematode and fly full genome sequences revealed only one gene (KIAA1630) was entirely conserved among human and these three organisms in the 100 genes reported here. Additionally, their chromosomal loci were determined by using human-rodent hybrid panels unless they were already assigned in the public databases. Furthermore, the expression profiles of the genes were also studied in 10 human tissues, 8 brain regions, spinal cord, fetal brain and fetal liver by reverse transcription-coupled polymerase chain reaction, products of which were quantified by enzyme-linked immunosorbent assay.

Amino Acid Sequence↗
PubMed2000

Prediction of the coding sequences of unidentified human genes. XIX. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro.

As an extension of our human cDNA project for accumulating sequence information on the coding sequences of unidentified genes, we here present the entire sequences of 100 cDNA clones of unidentified genes, named KIAA1673-KIAA1772, from three sets of size-fractionated cDNA libraries derived from human adult whole brain, hippocampus, and fetal whole brain. The average sizes of the inserts and corresponding open reading frames of cDNA clones analyzed here were 4.9 kb and 2.7 kb (corresponding to 895 amino acid residues), respectively. By computer-assisted analysis of the deduced amino acid sequences, 44 predicted gene products were classified into five functional categories of proteins relating to cell signaling/communication, nucleic acid management, cell structure/motility, protein management, and metabolism. Furthermore, the expression profiles of the genes were also studied in 10 human tissues, 8 brain regions, spinal cord, fetal brain and fetal liver by reverse-transcription-coupled polymerase chain reaction, the products of which were quantified by enzyme-linked immunosorbent assay.

Amino Acids↗
PubMed1985

Nucleotide sequence analysis of the nuclear gene coding for manganese superoxide dismutase of yeast mitochondria, a gene previously assumed to code for the Rieske iron-sulphur protein.

We have previously reported the isolation of the gene coding for a 25-kDa polypeptide present in a purified yeast QH2:cytochrome c oxidoreductase preparation, which was thus identified as the gene for the Rieske iron-sulphur protein [Van Loon et al. (1983) Gene 26, 261-272]. Subsequent DNA sequence analysis reported here reveals, however, that the encoded protein is in fact manganese superoxide dismutase, a mitochondrial matrix protein. Comparison with the known amino acid sequence of the mature protein indicates that it is synthesized with an N-terminal extension of 27 amino acids. In common with the N-terminal extensions of other imported mitochondrial proteins, the presequence has several basic residues but lacks negatively charged residues. The function of these positive charges and other possible topogenic sequences are discussed. Sequences 5' of the gene contain two elements that may be homologous to the suggested regulatory sites, UAS 1 and UAS 2 in the yeast CYC1 gene [Guarente et al. (1984) Cell 36, 503-511]. The predicted secondary structures in manganese superoxide dismutase appear to be very similar to those reported for iron superoxide dismutase, suggesting similar three-dimensional structures. Making use of the known three-dimensional structure of the Fe enzyme, the Mn ligands are predicted.

Amino Acid Sequence↗
PubMed1985

Image reconstruction from coded data: II. Code design.

A strategy is given for the design of coded apertures with respect to a given class of objects that are to be imaged. Previous knowledge of the first- and second-order statistics for the object class is assumed. The object class is characterized by its Karhunen-Loève eigenvectors and eigenvalues, whereas the imaging system is characterized by its singular-value decomposition. We introduce the concept of alignment in which the aperture parameters are adjusted until the system is tuned to measure the given object class well. A mean-square-error figure of merit that indicates degree of alignment is given, and alignment is performed by standard optimization techniques. We illustrate this technique with a simple proof-of-principle experiment. These concepts are general and may be applied to any linear imaging system.

Models, Structural↗
PubMed1983

Quantitative studies of stimulus coding in first-order vibrissa afferents of rats. 2. Adaptation and coding of stimulus parameters.

Mechanosensory neurons are often classified as either rapidly adapting or slowly adapting. We examined response decay (adaptation) during constant deflection of the vibrissae with quantitative, repeatable, ad hoc measures. We found that first-order vibrissa-activated neurons of the fifth ganglion exhibit a variety of adaptation rates that appear to be distributed continuously between the rapidly and slowly adapting extremes. Also, adaptation rate is influenced markedly by stimulus magnitude. We found no evidence for a dichotomy within the more slowly adapting neurons on the basis of discharge regularity. Threshold tuning curves were used to evaluate vibration sensitivity. Both the best frequencies and 1:1 discharge thresholds for sinusoidal stimulation ranged over two orders of magnitude and were continuously distributed. First-order vibrissa-activated afferents exhibit a broad variety of response patterns to constant-velocity stimulation. The pattern of discharge varied both as a function of time during constant-velocity (ramp) deflection and as a function of stimulus velocity. Although information about the parameters of a stimulus may be conveyed by any of several features of the response pattern, it appears that few if any neurons function as "pure" encoders of any particular stimulus parameter. We examined quantitatively the relationship between discharge rate and both velocity and amplitude of vibrissa deflection with the aid of a computer-based curve-fitting procedure. We found that about half the observed rate-level functions were best described by a power function; the remainder were best fit by a logarithmic function. The parameters of the best-fitting functions varied widely and continuously, emphasizing further the diversity of coding properties of the rat's vibrissa afferents. Rate-level curves for stimulus magnitude generally exhibited saturation; some were nonmonotonic. None were described adequately by either a logarithmic function or a power function.

Adaptation, Physiological↗
PubMed1999

Molecular evolution of coding and non-coding regions in Plasmodium.

Recurrence analysis provides a useful tool for the characterisation of oligonucleotide usage along genomic tracts. While coding regions are characterised by a low-recurrence regimen (except in the case of intragenic repeats) introns and intergenic regions exhibit a high density of recurring oligos, and appear to be correlated from the point of view of oligonucleotide preference. By comparing homologous loci in Plasmodium falciparum and P. berghei, it can be seen that introns and intergenic regions, though exhibiting very low sequence similarity, do not drift without constraints, but maintain a consistent use of the same oligos in the two species.

Animals↗
PubMed2005

Clinical coding. Code breakers.

--The advent of payment by results has seen the role of the clinical coder pushed to the fore in England. --Examinations for a clinical coding qualification began in 1999. In 2004, approximately 200 people took the qualification. --Trusts are attracting people to the role by offering training from scratch or through modern apprenticeships.

England↗
PubMed2005

Coding & billing. Will codes turn 10?

All of health care continues to hold its collective breath waiting for the Health and Human Services Department to give its final blessing to a new and improved coding system, ICD-10. But that wait could go on for a few more years.

Diagnosis-Related Groups↗
PubMed1990

Structural organization of the genes for murine and human leukemia inhibitory factor. Evolutionary conservation of coding and non-coding regions.

Leukemia inhibitory factor, LIF, is a glycoprotein with multiple activities in both the adult and the embryo. LIF appears to be encoded by a unique gene in both mouse and man, although the 3'-untranslated region of the mouse LIF gene gives a complex hybridization pattern on Southern blots. The complete nucleotide sequences of both the murine and human LIF genes and their flanking regions (8.7 and 7.6 kilobase pairs, respectively) were determined and compared. Both genes comprise three exons, two introns and an unusually long 3'-untranslated region (3.2 kilobase pairs), specificying a mRNA of approximately 4.1 kilobases. Two start sites of LIF-transcription were determined, by S1-nuclease protection and by a novel approach involving the polymerase chain reaction. S1-nuclease protection revealed a start site 60-64 base pairs upstream of the translational start codon and immediately downstream of a TATA box (TATATAAAT). The PCR approach identified a second transcriptional start site 160 base pairs 5' of the start codon and adjacent to a "TATA-like" element (CATAATTT). A comparison of the murine and human LIF gene sequences revealed a high degree of conservation in the coding regions and in segments of the untranslated and flanking regions. Seven segments displaying greater than 75% homology were identified, with the 5' and 3' ends of the transcription unit revealing the highest degree of homology. These conserved regions represents potential cis-acting control elements.

Amino Acid Sequence↗
PubMedDate not supplied

Call that code! Simulated code practices.

This article deals with the planning and implementation of simulated code blue practice sessions for licensed staff. Use of situational role play utilizing the actual equipment is emphasized. Strategies for implementing a program as well as strengths and weaknesses of one such program are discussed.

Humans↗
PubMed1977

The elongation factor Tu coded by the tufA gene of Escherichia coli K-12 is almost identical to that coded by the tufB gene.

Radioactive elongation factor Tu coded by either the tufA or the tufB gene of Escherichia coli K-12 was isolated from cells incubated with a mixture of radioactive amino acids after infection with the defective lambda phage particles that carry either of these genes. Two-dimensional chromatographic analyses of tryptic digests of the tufB gene product revealed about 50 radioactive spots. These same spots plus an additional one were also found in tryptic digests of the tufA gene product. Furthermore, these peptide maps are qualitatively the same as those of the elongation factor Tu obtained from two separate isolates of uninfected E. coli K-12 or from rel+ and relA strains of E. coli B. Because the number of spots recovered is consistent with the number of trypsin-sensitive sites, these analyses indicate that the tufA and tufB genes have not significantly diverged from each other.

Coliphages↗
PubMed1983

Genetic control of allogeneic interactions in the guinea-pig. V. Evidence for a dissociation between genes coding for A GPLA-B region-controlled determinant and genes coding for MLC suppressor cells.

The genetic basis of guinea-pig leucocyte antigen (GPLA)-B.2-associated unresponsiveness in the guinea-pig mixed leucocyte culture (MLC) was investigated using fibroblasts as stimulating cells. Guinea-pig foetal fibroblasts bearing the B.2 specificity can stimulate allogeneic but not syngeneic lymph node lymphocytes, whereas B.2-bearing peritoneal exudate cells (PEC) induce specific unresponsiveness. The inhibition of the mixed leucocyte-fibroblast reaction is seen only when the alloantisera are directed against the stimulatory fibroblast rather than the responding lymph node lymphocytes. Furthermore, B.2-bearing fibroblasts, in contrast to B.2-bearing PEC, fail to elaborate MLC-suppressor factor. It appears therefore, that in guinea-pig fibroblasts there is an apparent dissociation between major histocompatibility complex (MHC; in the region of the B locus) genes and the gene(s) coding for B.2-associated MLC suppressor cells and factor(s).

Animals↗
PubMed1983

Nuclear genes coding the yeast mitochondrial adenosine triphosphatase complex. Isolation of ATP2 coding the F1-ATPase beta subunit.

A yeast nuclear pet mutant of Saccharomyces cerevisiae lacking any detectable mitochondrial F1-ATPase activity was genetically complemented upon transformation with a pool of wild type genomic DNA fragments carried in the yeast Escherchia coli shuttle vector YEp 13. Plasmid-dependent complementation restored both growth of the pet mutant on a nonfermentable carbon source as well as functional mitochondrial ATPase activity. Characterization of the complementing plasmid by plasmid deletion analysis indicated that the complementing gene was contained on adjoining BamH1 fragments with a combined length of 3.05 kilobases. Gel analysis of the product of this DNA by in vitro translation in a rabbit reticulocyte lysate programmed with yeast mRNA hybrid selected by the plasmid revealed a product which could be immunoprecipitated by antisera against the beta subunit of the yeast mitochondrial ATPase complex. A comparison of the protein sequence derived from partial DNA sequence analysis indicated that the beta subunit of the yeast mitochondrial ATPase complex exhibits greater than 70% conservation of protein sequence when compared to the same subunit from the ATPase of E. coli, beef heart, and chloroplast. The gene coding the beta subunit (subunit 2) of yeast mitochondrial adenosine triphosphatase is designated ATP2. The utilization of cloned nuclear structural genes of mitochondrial proteins for the analysis of the post-translational targeting and import events in organelle assembly is discussed.

Amino Acid Sequence↗