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1.
Sci Rep ; 9(1): 13118, 2019 09 11.
Article in English | MEDLINE | ID: mdl-31511657

ABSTRACT

Autism Spectrum Disorder (ASD) is a set of heterogeneous neurodevelopmental conditions defined by impairments in social communication and restricted, repetitive behaviors, interests or activities. Only a minority of ASD cases are determined to have a definitive etiology and the pathogenesis of most ASD is poorly understood. We hypothesized that a global analysis of the proteomes of human ASD vs. control brain, heretofore not done, would provide important data with which to better understand the underlying neurobiology of autism. In this study, we characterized the proteomes of two brain regions, Brodmann area 19 (BA19) and posterior inferior cerebellum (CB), from carefully selected idiopathic ASD cases and matched controls using label-free HPLC-tandem mass spectrometry. The data revealed marked differences between ASD and control brain proteomes for both brain regions. Unlike earlier transcriptomic analyses using frontal and temporal cortex, however, our proteomic analysis did not support ASD attenuating regional gene expression differences. Bioinformatic analyses of the differentially expressed proteins between cases and controls highlighted canonical pathways involving glutamate receptor signaling and glutathione-mediated detoxification in both BA19 and CB; other pathways such as Sertoli cell signaling and fatty acid oxidation were specifically enriched in BA19 or CB, respectively. Network analysis of both regions of ASD brain showed up-regulation of multiple pre- and post-synaptic membrane or scaffolding proteins including glutamatergic ion channels and related proteins, up-regulation of proteins involved in intracellular calcium signaling, and down-regulation of neurofilament proteins, with DLG4 and MAPT as major hub proteins in BA19 and CB protein interaction networks, respectively. Upstream regulator analysis suggests neurodegeneration-associated proteins drive the differential protein expression for ASD in both BA19 and CB. Overall, the proteomic data provide support for shared dysregulated pathways and upstream regulators for two brain regions in human ASD brain, suggesting a common ASD pathophysiology that has distinctive regional expression.


Subject(s)
Autistic Disorder/pathology , Brain/pathology , Cerebral Cortex/pathology , Occipital Lobe/pathology , Protein Interaction Maps , Proteome/analysis , Proteome/metabolism , Autistic Disorder/metabolism , Brain/metabolism , Case-Control Studies , Cerebral Cortex/metabolism , Humans , Occipital Lobe/metabolism
2.
Bioeng Transl Med ; 3(2): 156-165, 2018 May.
Article in English | MEDLINE | ID: mdl-30065970

ABSTRACT

Autism spectrum disorder (ASD) is a developmental disorder which is currently only diagnosed through behavioral testing. Impaired folate-dependent one carbon metabolism (FOCM) and transsulfuration (TS) pathways have been implicated in ASD, and recently a study involving multivariate analysis based upon Fisher Discriminant Analysis returned very promising results for predicting an ASD diagnosis. This article takes another step toward the goal of developing a biochemical diagnostic for ASD by comparing five classification algorithms on existing data of FOCM/TS metabolites, and also validating the classification results with new data from an ASD cohort. The comparison results indicate a high sensitivity and specificity for the original data set and up to a 88% correct classification of the ASD cohort at an expected 5% misclassification rate for typically-developing controls. These results form the foundation for the development of a biochemical test for ASD which promises to aid diagnosis of ASD and provide biochemical understanding of the disease, applicable to at least a subset of the ASD population.

3.
Environ Microbiol ; 19(5): 1987-2004, 2017 05.
Article in English | MEDLINE | ID: mdl-28251783

ABSTRACT

Vibrios belonging to the Harveyi clade are major pathogens of marine vertebrates and invertebrates, causing major losses in wild and cultured organisms. Despite their significant impact, the pathogenicity mechanisms of these bacteria are not yet completely understood. In this study, the impact of indole signalling on the virulence of Vibrio campbellii was investigated. Elevated indole levels significantly decreased motility, biofilm formation, exopolysaccharide production and virulence to crustacean hosts. Indole furthermore inhibited the three-channel quorum sensing system of V. campbellii, a regulatory mechanism that is required for full virulence of the pathogen. Further, indole signalling was found to interact with the stress sigma factor RpoS. Together with the observations that energy-consuming processes (motility and bioluminescence) are downregulated, and microarray-based transcriptomics demonstrating that indole decreases the expression of genes involved in energy and amino acid metabolism, the data suggest that indole is a starvation signal in V. campbellii. Finally, it was found that the auxins indole-3-acetic acid and indole-3-acetamide, which were produced by various (micro)algae sharing the aquatic environment with V. campbellii, have a similar effect as observed for indole. Auxins might, therefore, have a significant impact on the interactions between vibrios, (micro)algae and higher organisms, with major ecological and practical implications.


Subject(s)
Artemia/microbiology , Bacterial Proteins/metabolism , Indoleacetic Acids/metabolism , Sigma Factor/metabolism , Vibrio/genetics , Vibrio/pathogenicity , Animals , Aquatic Organisms/genetics , Aquatic Organisms/metabolism , Artemia/embryology , Biofilms/growth & development , Larva/microbiology , Quorum Sensing/genetics , Quorum Sensing/physiology , Virulence/genetics , Virulence Factors/genetics
4.
Front Microbiol ; 4: 379, 2013.
Article in English | MEDLINE | ID: mdl-24376440

ABSTRACT

Melanization due to the inactivation of the homogentisate-1,2-dioxygenase gene (hmgA) has been demonstrated to increase stress resistance, persistence, and virulence in some bacterial species but such pigmented mutants have not been observed in pathogenic members of the Vibrio Harveyi clade. In this study, we used Vibrio campbellii ATCC BAA-1116 as model organism to understand how melanization affected cellular phenotype, metabolism, and virulence. An in-frame deletion of the hmgA gene resulted in the overproduction of a pigment in cell culture supernatants and cellular membranes that was identified as pyomelanin. Unlike previous demonstrations in Vibrio cholerae, Burkholderia cepacia, and Pseudomonas aeruginosa, the pigmented V. campbellii mutant did not show increased UV resistance and was found to be ~2.7 times less virulent than the wild type strain in Penaeus monodon shrimp virulence assays. However, the extracted pyomelanin pigment did confer a higher resistance to oxidative stress when incubated with wild type cells. Microarray-based transcriptomic analyses revealed that the hmgA gene deletion and subsequent pyomelanin production negatively effected the expression of 129 genes primarily involved in energy production, amino acid, and lipid metabolism, and protein translation and turnover. This transcriptional response was mediated in part by an impairment of the quorum sensing regulon as transcripts of the quorum sensing high cell density master regulator LuxR and other operonic members of this regulon were significantly less abundant in the hmgA mutant. Taken together, the results suggest that the pyomelanization of V. campbellii sufficiently impairs the metabolic activities of this organism and renders it less fit and virulent than its isogenic wild type strain.

5.
Sci Rep ; 3: 1831, 2013.
Article in English | MEDLINE | ID: mdl-23665920

ABSTRACT

Autism is a common and often severe neurodevelopmental disorder for which diverse pathophysiological processes have been proposed. Recent gene expression data comparing autistic and control brains suggest that the normal differential gene expression between frontal and temporal cortex is attenuated in autistic brains. It is unknown if regional de-differentiation occurs elsewhere in autistic brain. Using high resolution, genome-wide RNA expression microarrays and brain specimens meeting stringent selection criteria we evaluated gene expression data of two other regions: Brodmann area 19 (occipital cortex) and cerebellar cortex. In contrast to frontal/temporal cortical data, our data do not indicate an attenuation of regional specialization between occipital and cerebellar cortical regions in autistic brains.


Subject(s)
Autistic Disorder/genetics , Biomarkers/metabolism , Brain/metabolism , Cerebral Cortex/metabolism , Frontal Lobe/metabolism , Gene Expression Profiling , Temporal Lobe/metabolism , Brain/pathology , Case-Control Studies , Cerebellum/metabolism , Cerebellum/pathology , Cerebral Cortex/pathology , Computational Biology , Frontal Lobe/pathology , Humans , Oligonucleotide Array Sequence Analysis , RNA, Messenger/genetics , Real-Time Polymerase Chain Reaction , Reverse Transcriptase Polymerase Chain Reaction , Temporal Lobe/pathology
6.
Biol Trace Elem Res ; 151(2): 171-80, 2013 Feb.
Article in English | MEDLINE | ID: mdl-23192845

ABSTRACT

This study investigates both the level of toxic metals in children with autism and the possible association of those toxic metals with autism severity. This study involved 55 children with autism ages 5-16 years compared to 44 controls with similar age and gender. The study included measurements of toxic metals in whole blood, red blood cells (RBC), and urine. The autism group had higher levels of lead in RBC (+41 %, p = 0.002) and higher urinary levels of lead (+74 %, p = 0.02), thallium (+77 %, p = 0.0001), tin (+115 %, p = 0.01), and tungsten (+44 %, p = 0.00005). However, the autism group had slightly lower levels of cadmium in whole blood (-19 %, p = 0.003). A stepwise, multiple linear regression analysis found a strong association of levels of toxic metals with variation in the degree of severity of autism for all the severity scales (adjusted R(2) of 0.38-0.47, p < 0.0003). Cadmium (whole blood) and mercury (whole blood and RBC) were the most consistently significant variables. Overall, children with autism have higher average levels of several toxic metals, and levels of several toxic metals are strongly associated with variations in the severity of autism for all three of the autism severity scales investigated.


Subject(s)
Autistic Disorder/pathology , Cadmium/blood , Lead/blood , Lead/urine , Adolescent , Arsenic/blood , Arsenic/urine , Autistic Disorder/blood , Autistic Disorder/urine , Biomarkers/blood , Biomarkers/urine , Cadmium/urine , Case-Control Studies , Child , Child, Preschool , Erythrocytes/chemistry , Female , Humans , Limit of Detection , Linear Models , Male , Severity of Illness Index , Thallium/urine , Tin/urine , Tungsten/urine
7.
PLoS One ; 7(9): e44736, 2012.
Article in English | MEDLINE | ID: mdl-22984548

ABSTRACT

BACKGROUND: Autism is a common neurodevelopmental syndrome. Numerous rare genetic etiologies are reported; most cases are idiopathic. METHODOLOGY/PRINCIPAL FINDINGS: To uncover important gene dysregulation in autism we analyzed carefully selected idiopathic autistic and control cerebellar and BA19 (occipital) brain tissues using high resolution whole genome gene expression and whole genome DNA methylation microarrays. No changes in DNA methylation were identified in autistic brain but gene expression abnormalities in two areas of metabolism were apparent: down-regulation of genes of mitochondrial oxidative phosphorylation and of protein translation. We also found associations between specific behavioral domains of autism and specific brain gene expression modules related to myelin/myelination, inflammation/immune response and purinergic signaling. CONCLUSIONS/SIGNIFICANCE: This work highlights two largely unrecognized molecular pathophysiological themes in autism and suggests differing molecular bases for autism behavioral endophenotypes.


Subject(s)
Autistic Disorder/genetics , Epigenesis, Genetic , Transcription, Genetic , Adolescent , Adult , Brain/pathology , Child , Child, Preschool , DNA Methylation , Fragile X Syndrome/genetics , Gene Dosage , Gene Expression Regulation , Humans , Infant , Inflammation , Male , Middle Aged , Mitochondria/metabolism , Models, Statistical , Myelin Sheath/metabolism , Oligonucleotide Array Sequence Analysis , Oxidative Phosphorylation , Phenotype , Protein Biosynthesis , Sequence Analysis, DNA , Signal Transduction
8.
BMC Pediatr ; 11: 111, 2011 Dec 12.
Article in English | MEDLINE | ID: mdl-22151477

ABSTRACT

BACKGROUND: Vitamin/mineral supplements are among the most commonly used treatments for autism, but the research on their use for treating autism has been limited. METHOD: This study is a randomized, double-blind, placebo-controlled three month vitamin/mineral treatment study. The study involved 141 children and adults with autism, and pre and post symptoms of autism were assessed. None of the participants had taken a vitamin/mineral supplement in the two months prior to the start of the study. For a subset of the participants (53 children ages 5-16) pre and post measurements of nutritional and metabolic status were also conducted. RESULTS: The vitamin/mineral supplement was generally well-tolerated, and individually titrated to optimum benefit. Levels of many vitamins, minerals, and biomarkers improved/increased showing good compliance and absorption. Statistically significant improvements in metabolic status were many including: total sulfate (+17%, p = 0.001), S-adenosylmethionine (SAM; +6%, p = 0.003), reduced glutathione (+17%, p = 0.0008), ratio of oxidized glutathione to reduced glutathione (GSSG:GSH; -27%, p = 0.002), nitrotyrosine (-29%, p = 0.004), ATP (+25%, p = 0.000001), NADH (+28%, p = 0.0002), and NADPH (+30%, p = 0.001). Most of these metabolic biomarkers improved to normal or near-normal levels.The supplement group had significantly greater improvements than the placebo group on the Parental Global Impressions-Revised (PGI-R, Average Change, p = 0.008), and on the subscores for Hyperactivity (p = 0.003), Tantrumming (p = 0.009), Overall (p = 0.02), and Receptive Language (p = 0.03). For the other three assessment tools the difference between treatment group and placebo group was not statistically significant.Regression analysis revealed that the degree of improvement on the Average Change of the PGI-R was strongly associated with several biomarkers (adj. R2 = 0.61, p < 0.0005) with the initial levels of biotin and vitamin K being the most significant (p < 0.05); both biotin and vitamin K are made by beneficial intestinal flora. CONCLUSIONS: Oral vitamin/mineral supplementation is beneficial in improving the nutritional and metabolic status of children with autism, including improvements in methylation, glutathione, oxidative stress, sulfation, ATP, NADH, and NADPH. The supplement group had significantly greater improvements than did the placebo group on the PGI-R Average Change. This suggests that a vitamin/mineral supplement is a reasonable adjunct therapy to consider for most children and adults with autism. CLINICAL TRIAL REGISTRATION NUMBER: NCT01225198.


Subject(s)
Autistic Disorder/drug therapy , Child Behavior/drug effects , Dietary Supplements , Nutritional Support/methods , Trace Elements/administration & dosage , Vitamins/administration & dosage , Adolescent , Adult , Autistic Disorder/psychology , Child , Child, Preschool , Dose-Response Relationship, Drug , Double-Blind Method , Female , Follow-Up Studies , Humans , Male , Middle Aged , Prospective Studies , Time Factors , Treatment Outcome , Young Adult
9.
Nutr Metab (Lond) ; 8(1): 34, 2011 Jun 08.
Article in English | MEDLINE | ID: mdl-21651783

ABSTRACT

BACKGROUND: The relationship between relative metabolic disturbances and developmental disorders is an emerging research focus. This study compares the nutritional and metabolic status of children with autism with that of neurotypical children and investigates the possible association of autism severity with biomarkers. METHOD: Participants were children ages 5-16 years in Arizona with Autistic Spectrum Disorder (n = 55) compared with non-sibling, neurotypical controls (n = 44) of similar age, gender and geographical distribution. Neither group had taken any vitamin/mineral supplements in the two months prior to sample collection. Autism severity was assessed using the Pervasive Development Disorder Behavior Inventory (PDD-BI), Autism Treatment Evaluation Checklist (ATEC), and Severity of Autism Scale (SAS). Study measurements included: vitamins, biomarkers of vitamin status, minerals, plasma amino acids, plasma glutathione, and biomarkers of oxidative stress, methylation, sulfation and energy production. RESULTS: Biomarkers of children with autism compared to those of controls using a t-test or Wilcoxon test found the following statistically significant differences (p < 0.001): Low levels of biotin, plasma glutathione, RBC SAM, plasma uridine, plasma ATP, RBC NADH, RBC NADPH, plasma sulfate (free and total), and plasma tryptophan; also high levels of oxidative stress markers and plasma glutamate. Levels of biomarkers for the neurotypical controls were in good agreement with accessed published reference ranges. In the Autism group, mean levels of vitamins, minerals, and most amino acids commonly measured in clinical care were within published reference ranges.A stepwise, multiple linear regression analysis demonstrated significant associations between several groups of biomarkers with all three autism severity scales, including vitamins (adjusted R2 of 0.25-0.57), minerals (adj. R2 of 0.22-0.38), and plasma amino acids (adj. R2 of 0.22-0.39). CONCLUSION: The autism group had many statistically significant differences in their nutritional and metabolic status, including biomarkers indicative of vitamin insufficiency, increased oxidative stress, reduced capacity for energy transport, sulfation and detoxification. Several of the biomarker groups were significantly associated with variations in the severity of autism. These nutritional and metabolic differences are generally in agreement with other published results and are likely amenable to nutritional supplementation. Research investigating treatment and its relationship to the co-morbidities and etiology of autism is warranted.

10.
BMC Gastroenterol ; 11: 22, 2011 Mar 16.
Article in English | MEDLINE | ID: mdl-21410934

ABSTRACT

BACKGROUND: Children with autism have often been reported to have gastrointestinal problems that are more frequent and more severe than in children from the general population. METHODS: Gastrointestinal flora and gastrointestinal status were assessed from stool samples of 58 children with Autism Spectrum Disorders (ASD) and 39 healthy typical children of similar ages. Stool testing included bacterial and yeast culture tests, lysozyme, lactoferrin, secretory IgA, elastase, digestion markers, short chain fatty acids (SCFA's), pH, and blood presence. Gastrointestinal symptoms were assessed with a modified six-item GI Severity Index (6-GSI) questionnaire, and autistic symptoms were assessed with the Autism Treatment Evaluation Checklist (ATEC). RESULTS: Gastrointestinal symptoms (assessed by the 6-GSI) were strongly correlated with the severity of autism (assessed by the ATEC), (r = 0.59, p < 0.001). Children with 6-GSI scores above 3 had much higher ATEC Total scores than those with 6-GSI-scores of 3 or lower (81.5 +/- 28 vs. 49.0 +/- 21, p = 0.00002).Children with autism had much lower levels of total short chain fatty acids (-27%, p = 0.00002), including lower levels of acetate, proprionate, and valerate; this difference was greater in the children with autism taking probiotics, but also significant in those not taking probiotics. Children with autism had lower levels of species of Bifidobacter (-43%, p = 0.002) and higher levels of species of Lactobacillus (+100%, p = 0.00002), but similar levels of other bacteria and yeast using standard culture growth-based techniques. Lysozyme was somewhat lower in children with autism (-27%, p = 0.04), possibly associated with probiotic usage. Other markers of digestive function were similar in both groups. CONCLUSIONS: The strong correlation of gastrointestinal symptoms with autism severity indicates that children with more severe autism are likely to have more severe gastrointestinal symptoms and vice versa. It is possible that autism symptoms are exacerbated or even partially due to the underlying gastrointestinal problems. The low level of SCFA's was partly associated with increased probiotic use, and probably partly due to either lower production (less sacchrolytic fermentation by beneficial bacteria and/or lower intake of soluble fiber) and/or greater absorption into the body (due to longer transit time and/or increased gut permeability).


Subject(s)
Autistic Disorder/physiopathology , Gastrointestinal Tract/microbiology , Gastrointestinal Tract/physiopathology , Severity of Illness Index , Bifidobacterium/isolation & purification , Case-Control Studies , Child , Child, Preschool , Digestion/physiology , Fatty Acids, Volatile/metabolism , Female , Gastrointestinal Diseases/drug therapy , Gastrointestinal Diseases/metabolism , Gastrointestinal Diseases/physiopathology , Gastrointestinal Tract/metabolism , Humans , Lactobacillus/isolation & purification , Male , Probiotics/therapeutic use
11.
Biofactors ; 37(2): 121-30, 2011.
Article in English | MEDLINE | ID: mdl-20806417

ABSTRACT

The various health benefits of Vaccinium macrocarpon (cranberry) are well documented and have been attributed mainly to its antioxidant capacity and anti-adhesive activity. Several different mechanisms have been proposed to explain the possible role of cranberries, cranberry juice, and cranberry extracts in inhibiting bacterial growth. These mechanisms of action (i.e., inhibition of the microbial growth) have not been thoroughly studied. Here, we took advantage of current advances in microarray technology and used GeneChip® Escherichia coli genome 2.0 arrays to gain insight into the molecular mechanisms involved in the impact of cranberry juice on the properties of E. coli growth. The inclusion of cranberry juice in bacterial growth media was found to significantly impact the doubling time of E. coli. The gene expression results revealed altered expression of genes associated with iron transport and essential metabolic enzymes as well as with adenosine triphosphate (ATP) synthesis and fumarate hydratase in these cultures. The altered expression of genes associated with iron transport was consistent with the strong iron chelating capability of proanthocyanidins, a major constituent of cranberry juice. The iron depletion effect was confirmed by adding exogenous iron to the growth media. This addition partially reversed the inhibitory effect on bacterial growth observed in the presence of cranberry juice/extracts.


Subject(s)
Anti-Bacterial Agents/chemistry , Anti-Bacterial Agents/pharmacology , Escherichia coli/drug effects , Iron Chelating Agents/chemistry , Iron Chelating Agents/pharmacology , Plant Extracts/chemistry , Plant Extracts/pharmacology , Vaccinium macrocarpon/chemistry , Iron/metabolism , Iron/pharmacology , Proanthocyanidins/metabolism
12.
BMC Res Notes ; 2: 226, 2009 Nov 12.
Article in English | MEDLINE | ID: mdl-19909515

ABSTRACT

BACKGROUND: The inhibition of Escherichia coli growth in the presence of Vaccinium macrocarpon has been extensively described; however, the mechanisms of this activity are not well characterized. FINDINGS: Here, E. coli was grown in media spiked with cranberry juice. The growth rate and media pH were monitored over more than 300 generations. The pH of the growth media was found to decrease during cell growth. This result was unique to media spiked with cranberry juice and was not reproduced through the addition of sugars, proanthocyanidins, or metal chelators to growth media. CONCLUSION: This study demonstrated that factors other than sugars or proanthocyanidins in cranberry juice result in acidification of the growth media. Further studies are necessary for a complete understanding of the antimicrobial activity of cranberry products.

13.
BMC Clin Pharmacol ; 9: 16, 2009 Oct 23.
Article in English | MEDLINE | ID: mdl-19852789

ABSTRACT

BACKGROUND: This study investigated the effect of oral dimercapto succinic acid (DMSA) therapy for children with autism spectrum disorders ages 3-8 years. METHODS: Phase 1 involved 65 children who received one round of DMSA (3 days). Participants who had high urinary excretion of toxic metals were selected to continue on to phase 2. In phase 2, 49 participants were randomly assigned in a double-blind design to receive an additional 6 rounds of either DMSA or placebo. RESULTS: DMSA greatly increased the excretion of lead, substantially increased excretion of tin and bismuth, and somewhat increased the excretion of thallium, mercury, antimony, and tungsten. There was some increase in urinary excretion of essential minerals, especially potassium and chromium. The Phase 1 single round of DMSA led to a dramatic normalization of RBC glutathione in almost all cases, and greatly improved abnormal platelet counts, suggesting a significant decrease in inflammation. CONCLUSION: Overall, DMSA therapy seems to be reasonably safe, effective in removing several toxic metals (especially lead), dramatically effective in normalizing RBC glutathione, and effective in normalizing platelet counts. Only 1 round (3 days) was sufficient to improve glutathione and platelets. Additional rounds increased excretion of toxic metals.


Subject(s)
Autistic Disorder/drug therapy , Succimer/administration & dosage , Succimer/adverse effects , Administration, Oral , Autistic Disorder/blood , Autistic Disorder/urine , Blood Cell Count/methods , Child , Child, Preschool , Double-Blind Method , Female , Glutathione/blood , Glutathione/urine , Humans , Male , Metals/blood , Metals/urine , Treatment Outcome
14.
BMC Clin Pharmacol ; 9: 17, 2009 Oct 23.
Article in English | MEDLINE | ID: mdl-19852790

ABSTRACT

BACKGROUND: This study investigated the effects of oral dimercapto succinic acid (DMSA) therapy on the behavioural symptoms of children with autism spectrum disorders (ASD) ages 3-8 years. METHODS: Phase 1 involved 65 children with ASD who received one round of DMSA (3 days). Participants who had high urinary excretion of toxic metals were selected to continue on to phase 2. In phase 2, 49 participants were randomly assigned in a double-blind design to receive an additional 6 rounds of either DMSA or placebo. RESULTS: The groups receiving one round and seven rounds of DMSA had significant improvements on all the assessment measures. For the seven round group, the degree of improvement on the assessment measures could be partially explained by a regression analysis based on excretion of toxic metals and changes in glutathione (adjusted R2 of 0.28-0.75, p < 0.02 in all cases). One round of DMSA had nearly the same benefit as seven rounds. The assessment measures correlated reasonably with one another at the beginning of the study (r = 0.60-0.87) and even better at the end of the study (r = 0.63-0.94). CONCLUSION: Overall, both one and seven rounds of DMSA therapy seems to be reasonably safe in children with ASD who have high urinary excretion of toxic metals, and possibly helpful in reducing some of the symptoms of autism in those children.


Subject(s)
Adaptation, Psychological/drug effects , Autistic Disorder/drug therapy , Chelating Agents/adverse effects , Chelating Agents/therapeutic use , Child Behavior/drug effects , Succimer/adverse effects , Succimer/therapeutic use , Aging , Autistic Disorder/classification , Autistic Disorder/complications , Child , Child, Preschool , Drug Administration Schedule , Glutathione/blood , Heavy Metal Poisoning, Nervous System/complications , Humans , Metals, Heavy/toxicity , Metals, Heavy/urine , Parents/psychology , Psychiatric Status Rating Scales , Regression Analysis , Surveys and Questionnaires , Treatment Outcome
15.
BMC Bioinformatics ; 10: 292, 2009 Sep 16.
Article in English | MEDLINE | ID: mdl-19758448

ABSTRACT

BACKGROUND: The disparate results from the methods commonly used to determine differential expression in Affymetrix microarray experiments may well result from the wide variety of probe set and probe level models employed. Here we take the approach of making the fewest assumptions about the structure of the microarray data. Specifically, we only require that, under the null hypothesis that a gene is not differentially expressed for specified conditions, for any probe position in the gene's probe set: a) the probe amplitudes are independent and identically distributed over the conditions, and b) the distributions of the replicated probe amplitudes are amenable to classical analysis of variance (ANOVA). Log-amplitudes that have been standardized within-chip meet these conditions well enough for our approach, which is to perform ANOVA across conditions for each probe position, and then take the median of the resulting (1 - p) values as a gene-level measure of differential expression. RESULTS: We applied the technique to the HGU-133A, HG-U95A, and "Golden Spike" spike-in data sets. The resulting receiver operating characteristic (ROC) curves compared favorably with other published results. This procedure is quite sensitive, so much so that it has revealed the presence of probe sets that might properly be called "unanticipated positives" rather than "false positives", because plots of these probe sets strongly suggest that they are differentially expressed. CONCLUSION: The median ANOVA (1-p) approach presented here is a very simple methodology that does not depend on any specific probe level or probe models, and does not require any pre-processing other than within-chip standardization of probe level log amplitudes. Its performance is comparable to other published methods on the standard spike-in data sets, and has revealed the presence of new categories of probe sets that might properly be referred to as "unanticipated positives" and "unanticipated negatives" that need to be taken into account when using spiked-in data sets at "truthed" test beds.


Subject(s)
Computational Biology/methods , Gene Expression Profiling/methods , Microarray Analysis
16.
Biochem Biophys Res Commun ; 377(3): 992-4, 2008 Dec 19.
Article in English | MEDLINE | ID: mdl-18957286

ABSTRACT

The anti-adhesive effects of cranberry have been attributed to both interactions of its components with the surface of bacterial cells and to inhibition of p-fimbriae expression. Previous reports also suggested that the presence of cranberry juice changed the Gram stain characteristics of Escherichia coli. Here, we show that the morphology of E. coli is changed when grown in the presence of juice or extract from Vaccinium macrocarpon (cranberry). Gene expression analysis indicates the down regulation of flagellar basal body rod and motor proteins. Consistent with this finding and previous reports, the SEM images indicate a decrease in the visible p-fimbriae. The iodine used in Gram-staining protocols was found to interact differently with the bacterial membrane when cells were cultured in spiked media. Slight alterations in the Gram stain protocol demonstrated that culturing in the presence of cranberry juice does not change the Gram stain characteristics contradicting other reports.


Subject(s)
Bacterial Adhesion/drug effects , Cell Membrane/drug effects , Escherichia coli/drug effects , Receptors, Immunologic/drug effects , Vaccinium macrocarpon/chemistry , Bacterial Adhesion/physiology , Cell Membrane/physiology , Cell Membrane/ultrastructure , Escherichia coli/physiology , Escherichia coli/ultrastructure , Microscopy, Electron, Scanning , Plant Extracts/chemistry , Plant Extracts/pharmacology , Receptors, Immunologic/physiology , Receptors, Immunologic/ultrastructure
17.
J Long Term Eff Med Implants ; 16(1): 1-7, 2006.
Article in English | MEDLINE | ID: mdl-16566740

ABSTRACT

Rogel Patawaran is cofounder of iQSecure Solutions, Inc., a secure web mail company, which began in 2002 and is currently based in Santa Monica, California. Its unique service enables hospitals, clinics, and doctors' offices the opportunity to have secure web-based video and telephone conferencing by simply switching online services offered by this innovative company. In addition, he is cofounder of AuthoTecq, based in Long Beach, California, and inventor of the AuthoTecq system in 1999. The AuthoTecq system is an online credit card processing company. Rogel Patawaran sought to remedy one of the problems facing users of internet transactions. Because internet merchants act as their own gateway for financial transactions, they have been storing credit card numbers in their own databases, thereby failing to address the necessary security provisions involved in the storage of such sensitive information. AuthoTecq removes this responsibility from the merchant by processing financial transactions on behalf of the merchants. Its system dramatically reduces credit card theft, and thereby decreases the amount of credit card fraud. In his landmark book Saving Lives & Saving Money, Newt Gingrich, former Speaker of House of Representatives, describes a new approach to the challenge of creating a better system of personal health and health care for the 21st century, a system that saves lives and saves money. He indicates that you could be visiting a clinic with electronic medical records, electronic laboratory reports, and electronic drug prescriptions. This entirely electronic clinic saves money and lives because it is far more accurate than a paper system. Such clinics exist at the Kaiser Permanente Hospitals, the Mayo Clinic in Jacksonville, Florida, the Cleveland Clinic, many Harvard hospitals, and all Veteran Administration hospitals in the US. He indicates that healthcare is the only industry in America that can give you a disease and then charge you to cure it. He further reports that out of 100 hospital patients, five or six will be the victim of a preventable error. He states that medication errors alone kill 7000 people each year, adding $2 billion to the overall cost of healthcare. He stresses that these 7000 needless deaths are not only unacceptable but un-American as well. During the 1990s, the pharmaceutical industry sought help from the Food and Drug Administration (FDA) to develop a standard by which a paperless system could be adopted for healthcare. In March of 1997, the FDA issued its final ruling, which established the criteria for which the FDA will recognize the transmission of authenticity within electronic data as well as establishing standards of authenticity for electronic data equivalent to the validity of signatures on paper documents and records. The FDA also recognizes the growth that can be experienced by converting healthcare technology to a paperless system, such as the expediting of patient files in a more organized manner, increasing the speed of file transfer of such documents, reducing prescription errors, enabling computer-generated data analysis and statistics, and reducing storage space. Rogel Patawaran and his colleagues also realized that electronic healthcare technology using the highest standard of data encryption to transfer data could also dramatically improve the safety of patients in our nation and the world. To answer the needs within healthcare technology, Rogel Patawaran created a system for healthcare providers using the most superior encryption methods, and in the process creating iQSolutions, Inc. Its web mail system uses the Public Key Infrastructure (PKI) format, which is the strongest known encryption format. PKI is used in combination with the Advance Encryption Standard (AES) digital encryption algorithm, which is the current algorithm used by banks and government agencies, thereby protecting the privacy and accuracy of the information. Rogel Patawaran's remarkable contributions to the encryption process will aid in the number of lives saved as well as helping to avoid medical malpractice by ensuring the accuracy of medical records, as well as reducing the number of medication errors or inappropriate prescriptions being filled. These remarkable accomplishments in patient safety are accomplished at a rapid speed that ensures that data-sensitive patient files can be securely transmitted between and within hospitals. Finally, with the growing need for an electronic system within the medical field, doctors will be able to securely access all such data from anywhere and at any time, thus reducing the age-old problem of time constraints that a paper system presented doctors and hospitals alike. In recognition of Rogel Patawaran's contributions to the medical field through the use of encryption teamed with the transferring of sensitive data such as hospital records, Rogel Patawaran has been selected as the Outstanding Scientist of 2006.


Subject(s)
Computer Communication Networks/history , Delivery of Health Care/history , Science/history , Artificial Intelligence , History, 20th Century , History, 21st Century , Humans , United States
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