Antibody-free enrichment method for proteome-wide analysis of endogenous SUMOylation sites

2021 ◽  
Vol 1154 ◽  
pp. 338324
Author(s):  
Yang Li ◽  
Mingwei Sun ◽  
Yechen Hu ◽  
Yichu Shan ◽  
Zhen Liang ◽  
...  
Keyword(s):  
Enrichment Method ◽  
Free Enrichment

Cancer marker-free enrichment and direct mutation detection in rare cancer cells by combining multi-property isolation and microfluidic concentration

Lab on a Chip ◽  
2019 ◽  
Vol 19 (5) ◽  
pp. 757-766 ◽  
Author(s):  
Soo Hyeon Kim ◽  
Hiroshi Ito ◽  
Masahiro Kozuka ◽  
Hidenori Takagi ◽  
Mitsuharu Hirai ◽  
...  
Keyword(s):  
Cancer Cells ◽  
Negative Selection ◽  
Mutation Detection ◽  
Direct Detection ◽  
Rare Cancer ◽  
Enrichment Method ◽  
Cancer Marker ◽  
Direct Mutation ◽  
Marker Free ◽  
Free Enrichment

We present a novel cancer marker-free CTC enrichment method by size-based filtration and immunomagnetic negative selection followed by dielectrophoretic concentration for direct detection of genetic mutations in rare cancer cells suspended in whole blood.

An Enrichment Method for Bio-samples Based on Circular Injection on a Microfluidic Chip

2013 ◽  
Vol 40 (11) ◽  
pp. 1668-1673
Author(s):  
Min DU ◽  
Xiong-Ying YE ◽  
Jin-Yang FENG ◽  
Zeng-Shuai MA ◽  
Zhao-Ying ZHOU
Keyword(s):  
Microfluidic Chip ◽  
Enrichment Method

An enrichment method for mapping ambiguous reads to the reference genome for NGS analysis

2019 ◽  
Vol 17 (06) ◽  
pp. 1940012
Author(s):  
Yuan Liu ◽  
Yongchao Ma ◽  
Evan Salsman ◽  
Frank A. Manthey ◽  
Elias M. Elias ◽  
...  
Keyword(s):  
Reference Genome ◽  
Association Studies ◽  
Large Fraction ◽  
Snp Markers ◽  
Alternative Methods ◽  
Probability Method ◽  
Genome Wide Association Studies ◽  
Enrichment Method ◽  
Allele Distribution ◽  
Random Method

Mapping short reads to a reference genome is an essential step in many next-generation sequencing (NGS) analyses. In plants with large genomes, a large fraction of the reads can align to multiple locations of the genome with equally good alignment scores. How to map these ambiguous reads to the genome is a challenging problem with big impacts on the downstream analysis. Traditionally, the default method is to assign an ambiguous read randomly to one of the many potential locations. In this study, we explore two alternative methods that are based on the hypothesis that the possibility of an ambiguous read being generated by a location is proportional to the total number of reads produced by that location: (1) the enrichment method that assigns an ambiguous read to the location that has produced the most reads among all the potential locations, (2) the probability method that assigns an ambiguous read to a location based on a probability proportional to the number of reads the location produces. We systematically compared the performance of the proposed methods with that of the default random method. Our results showed that the enrichment method produced better results than the default random method and the probability method in the discovery of single nucleotide polymorphisms (SNPs). Not only did it produce more SNP markers, but it also produced SNP markers with better quality, which was demonstrated using multiple mainstay genomic analyses, including genome-wide association studies (GWAS), minor allele distribution, population structure, and genomic prediction.

Selective pre-enrichment method to lessen time needed to recover Salmonella from commercial poultry processing samples

2021 ◽  
Vol 99 ◽  
pp. 103818
Author(s):  
Surendra Rasamsetti ◽  
Mark Berrang ◽  
Nelson A. Cox ◽  
Nikki W. Shariat
Keyword(s):  
Enrichment Method ◽  
Poultry Processing ◽  
Commercial Poultry

scholarly journals Erratum: CORRIGENDUM: Separable Bilayer Microfiltration Device for Viable Label-free Enrichment of Circulating Tumour Cells

2015 ◽  
Vol 5 (1) ◽  
Author(s):  
Ming-Da Zhou ◽  
Sijie Hao ◽  
Anthony J. Williams ◽  
Ramdane A. Harouaka ◽  
Brett Schrand ◽  
...  
Keyword(s):  
Tumour Cells ◽  
Circulating Tumour Cells ◽  
Label Free ◽  
Free Enrichment

Detection of Vibrio cholerae and Vibrio parahaemolyticus by molecular and culture based methods from source water to household container-stored water at the point-of-use in South African rural communities

2010 ◽  
Vol 61 (12) ◽  
pp. 3091-3101 ◽  
Author(s):  
V. M. Ntema ◽  
N. Potgieter ◽  
T. G. Barnard
Keyword(s):  
16S Rrna ◽  
Vibrio Cholerae ◽  
Vibrio Parahaemolyticus ◽  
Pcr Detection ◽  
Toxin Gene ◽  
Specific Method ◽  
Culturable Bacteria ◽  
Source Water ◽  
Enrichment Method ◽  
Filtration Enrichment

Detection methods for Vibrio cholerae and Vibrio parahaemolyticus which included the culture based approach with polymerase chain reaction (PCR) confirmation, PCR detection without enrichment and PCR with a pre-enrichment were developed and their performance evaluated. PCR assays targeted the SodB (V. cholerae species), Flae (V. parahaemolyticus species), 16S rRNA (Vibrio and Enterobacteriacea species) genes (Multiplex 1) and V. cholerae O1 and V. cholerae O139 rfb genes, ctxA (cholera toxin) gene and 16S rRNA gene (Multiplex 2). These methods were used to determine the occurrence of selected Vibrios in source water as well as in household container-stored water. The combination of filtration, enrichment and PCR method provided a sensitive and specific method for the detection of selected Vibrios in water samples. The PCR with a pre-enrichment method detected as few as 4–10 cfu/100 mL of selected Vibrios and PCR detection without the enrichment method detected as few as 40–100 cfu/100 mL of selected Vibrios. The inclusion of an enrichment period allows detection of culturable bacteria. As an application of the developed methods, V. cholerae and V. parahaemolyticus were detected in the source water used by the population and in the water-storage containers. The results indicate that Vibrio species in the containers could have originated from the source water and survive in biofilms inside the containers.

scholarly journals 56P Single circulating tumor cells RNA profiling by label-free enrichment and active single cell selection on an integrated fluidic system

2016 ◽  
Vol 27 ◽  
pp. ix15-ix16
Author(s):  
Y.F. Lee ◽  
N. Ramalingam ◽  
L. Szpankowski ◽  
A. Leyrat ◽  
N.D. Angeles ◽  
...  
Keyword(s):  
Single Cell ◽  
Tumor Cells ◽  
Circulating Tumor Cells ◽  
Cell Selection ◽  
Label Free ◽  
Rna Profiling ◽  
Free Enrichment

Using airflow-driven, evaporative gradients to improve sensitivity and fluid control in colorimetric paper-based assays

Lab on a Chip ◽  
2021 ◽  
Author(s):  
Edward Wang ◽  
Zhilin Guo ◽  
Rui Tang ◽  
Yu-Hwa Lo
Keyword(s):  
Colorimetric Detection ◽  
Enrichment Method ◽  
Evaporative Enrichment ◽  
Fluid Control

An airflow based, evaporative enrichment method for use in microfluidic paper-based assays. The method is used for fluid control in a multistep assay and as a technique to improve sensitivity in colorimetric detection assays.

COCHLIOBOLUS SATIVUS: VI. ISOLATION OF NUTRITIONALLY EXACTING MUTANTS BY FILTRATION ENRICHMENT

1962 ◽  
Vol 40 (10) ◽  
pp. 1293-1297 ◽  
Author(s):  
R. D. Tinline
Keyword(s):  
Mass Transfer ◽  
Comparative Studies ◽  
Minimal Medium ◽  
Cochliobolus Sativus ◽  
Complete Medium ◽  
Differential Growth ◽  
Enrichment Method ◽  
Filtration Enrichment ◽  
Hyphal Tip ◽  
Methods Of Isolation

Nutritionally exacting mutants of Cochliobolus sativus, a fungus with multinucleate, multicellular spores, were readily isolated by a filtration enrichment method. The method is similar to one described by Fries and is based upon the differential growth of auxotrophs and prototrophs in minimal medium. Most of the prototrophic propagules were removed by filtration. Propagules in the filtrate were concentrated by centrifugation, plated on complete medium, and subsequently tested for nutritional requirements.In comparative studies on four methods of isolation, namely, total isolation, mass transfer; total isolation, hyphal-tip transfer; filtration enrichment, mass transfer; and filtration enrichment, hyphal-tip transfer, the yield of auxotrophic mutants was 0, 0.04, 1.16, and 1.83%, respectively.

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