Journal: Journal of Pathology and Translational Medicine

Article Title: Clinical Significance of an HPV DNA Chip Test with Emphasis on HPV-16 and/or HPV-18 Detection in Korean Gynecological Patients

doi: 10.4132/jptm.2016.05.09

Figure Lengend Snippet: Histology results according to cytology, HPV DNA chip results, a and HC2 results

Article Snippet: The hybridized HPV DNA was visualized using a DNA chip scanner (ScanArray LITE, GSI Lumonics Inc., Bedford, MA, USA).

Techniques:

Journal: Journal of Pathology and Translational Medicine

Article Title: Clinical Significance of an HPV DNA Chip Test with Emphasis on HPV-16 and/or HPV-18 Detection in Korean Gynecological Patients

doi: 10.4132/jptm.2016.05.09

Figure Lengend Snippet: Age-adjusted odds ratio for ≥HSIL histology in each HPV group

Article Snippet: The hybridized HPV DNA was visualized using a DNA chip scanner (ScanArray LITE, GSI Lumonics Inc., Bedford, MA, USA).

Techniques:

Journal: Journal of Pathology and Translational Medicine

Article Title: Clinical Significance of an HPV DNA Chip Test with Emphasis on HPV-16 and/or HPV-18 Detection in Korean Gynecological Patients

doi: 10.4132/jptm.2016.05.09

Figure Lengend Snippet: Comparison between HPV DNA chip results a and HC2 results

Article Snippet: The hybridized HPV DNA was visualized using a DNA chip scanner (ScanArray LITE, GSI Lumonics Inc., Bedford, MA, USA).

Techniques: Comparison

Journal: Journal of Pathology and Translational Medicine

Article Title: Clinical Significance of an HPV DNA Chip Test with Emphasis on HPV-16 and/or HPV-18 Detection in Korean Gynecological Patients

doi: 10.4132/jptm.2016.05.09

Figure Lengend Snippet: Clinical performance of cytology, HPV DNA chip test, and HC2 test

Article Snippet: The hybridized HPV DNA was visualized using a DNA chip scanner (ScanArray LITE, GSI Lumonics Inc., Bedford, MA, USA).

Techniques:

Journal: Journal of Pathology and Translational Medicine

Article Title: Clinical Significance of an HPV DNA Chip Test with Emphasis on HPV-16 and/or HPV-18 Detection in Korean Gynecological Patients

doi: 10.4132/jptm.2016.05.09

Figure Lengend Snippet: Age-adjusted odds ratio for ≥HSIL histology in each HPV group exhibiting “NILM” and “ASC or AGC” cytology

Article Snippet: The hybridized HPV DNA was visualized using a DNA chip scanner (ScanArray LITE, GSI Lumonics Inc., Bedford, MA, USA).

Techniques:

Journal:

Article Title: Rapid Analysis of the DNA Binding Specificities of Transcription Factors with DNA Microarrays

doi: 10.1038/ng1473

Figure Lengend Snippet: (a) Overview of PBM experiments. (b) Whole-genome yeast intergenic microarray bound by Rap1. The fluorescence intensities of the spots are shown in false-color, with white indicating saturated signal intensity, red indicating high signal intensity, green indicating moderate signal intensity, and blue indicating low signal intensity. (c) Zoom-in on a portion of the whole-genome yeast intergenic microarray bound by Rap1.

Article Snippet: We labeled the protein-bound array with Cy3-conjugated M2 anti-FLAG primary antibody (Sigma), and scanned it with a microarray scanner (GSI Lumonics ScanArray).

Techniques: Microarray, Fluorescence

Journal:

Article Title: Comprehensive identification of conditionally essential genes in mycobacteria

doi: 10.1073/pnas.231275498

Figure Lengend Snippet: Schematic representation of TraSH procedure. (A) Chromosomal region encompassing genes A–C from six different mutant strains (rectangles) is shown. Each mutant carries a single transposon insertion (triangles) that disrupts the function of a gene. Pools of mutants are grown under two different selective conditions. Genes A and C are nonessential for growth. Gene B is essential only under growth condition 2, and mutants harboring insertions in this gene are lost from this pool (represented by light shading). TraSH target that is complementary to the chromosomal DNA flanking each transposon insertion is generated from the two pools, labeled with different fluorophores, and hybridized to a microarray. The DNA probes representing genes A and C on the microarray will hybridize to the target generated from both pools. However, the target representing gene B will only be present in the pool from growth condition 1. By measuring the ratio of the two fluorophores for each probe, differential gene requirements are detected. (B) Method for generating TraSH target. The chromosomal DNA containing a transposon insertion (green) is digested with frequent cutting restriction enzymes, and adapters (blue) are ligated to the ends of the resulting DNA. PCR is then performed with primers (red) that hybridize to transposon and adapter sequences. To avoid the amplification of fragments that do not contain transposon sequence, the adapter contains the adapter–primer sequence but not the complementary strand, which serves as a binding site for this primer. Thus, the binding site must be generated by extension from the transposon-specific primer. To allow for the linear extension of these products, the transposon primer was designed with a higher melting temperature than the adapter primer, and higher annealing temperatures were used in the initial cycles of PCR (see Materials and Methods). Extension of the adapter itself, which would generate a binding site for the adapter primer, is prevented by a 3′-amino modification. The resulting PCR product is used as a template for the in vitro transcription of RNA target. This RNA is labeled and used for microarray hybridization.

Article Snippet: Images were acquired with a Scanarray microarray scanner (GSI Lumonics, Watertown, MA) and analyzed with GENEPIX software (Axon Instruments, Foster City, CA).

Techniques: Mutagenesis, Generated, Labeling, Microarray, Amplification, Sequencing, Binding Assay, Modification, In Vitro, Hybridization

Journal:

Article Title: Comprehensive identification of conditionally essential genes in mycobacteria

doi: 10.1073/pnas.231275498

Figure Lengend Snippet: Auxotrophic mutations identified by TraSH. Intensities are the average of duplicate features from two independent microarray TraSH hybridizations.

Article Snippet: Images were acquired with a Scanarray microarray scanner (GSI Lumonics, Watertown, MA) and analyzed with GENEPIX software (Axon Instruments, Foster City, CA).

Techniques: Microarray

Journal:

Article Title: Comprehensive identification of conditionally essential genes in mycobacteria

doi: 10.1073/pnas.231275498

Figure Lengend Snippet: TraSH identifies mutations that result in auxotrophy. The bar graphs display the fluorescence intensity observed for each gene across the genomic region surrounding auxotrophic mutations (in bold). Gray bars and white bars represent fluorescence observed from pools grown on minimal or rich medium, respectively. Data are the average of duplicate measurements from a single microarray and are represented on a log scale. Error bars representing standard deviations are shown for all features. The absence of error bars indicates that the value was too small to be plotted. Genes for which the intensity from the rich medium pool did not exceed two-times the background were omitted.

Article Snippet: Images were acquired with a Scanarray microarray scanner (GSI Lumonics, Watertown, MA) and analyzed with GENEPIX software (Axon Instruments, Foster City, CA).

Techniques: Fluorescence, Microarray

Journal: Quantitative biology (Beijing, China)

Article Title: The Ontology of Biological and Clinical Statistics (OBCS)-based statistical method standardization and meta-analysis of host responses to yellow fever vaccines

doi:

Figure Lengend Snippet: Detailed comparison between three yellow fever vaccine studies.

Article Snippet: 14 , Microarry scanner , Illumina BeadStation 500GX scanner , Perkin Elmer ScanArray Express dual-laser microarray scanner , GeneChip Scanner 3000 (Affymetrix).

Techniques: Comparison, Injection, Sample Prep, RNA Amplification, Amplification, cDNA Synthesis, Labeling, Microarray, Software, Gene Expression

Journal: Quantitative biology (Beijing, China)

Article Title: The Ontology of Biological and Clinical Statistics (OBCS)-based statistical method standardization and meta-analysis of host responses to yellow fever vaccines

doi:

Figure Lengend Snippet: Detailed comparison between three yellow fever vaccine studies.

Article Snippet: 14 , Microarry scanner , Illumina BeadStation 500GX scanner , Perkin Elmer ScanArray Express dual-laser microarray scanner , GeneChip Scanner 3000 (Affymetrix).

Techniques: Injection, Sample Prep, Amplification, Labeling, Microarray, Software, Expressing