A high-throughput method for monitoring changes in homeobox gene expression

2007 ◽  
Vol 357 (4) ◽  
pp. 882-888 ◽  
Author(s):  
David H. Reese ◽  
Moraima Ramos-Valle
Keyword(s):  
Gene Expression ◽  
High Throughput ◽  
Homeobox Gene ◽  
High Throughput Method

SNARE-seq2 v2

2021 ◽  
Author(s):  
Nongluk Plongthongkum ◽  
Dinh H Diep ◽  
Song Chen ◽  
Blue Lake ◽  
Kun Zhang
Keyword(s):  
Gene Expression ◽  
High Throughput ◽  
Chromatin Accessibility ◽  
Single Experiment ◽  
Data Set ◽  
Whole Cells ◽  
High Throughput Method ◽  
Single Nucleus ◽  
Accessible Chromatin ◽  
Entire Procedure

To study the heterogeneity of complex tissues by joint profiling of gene expression and its regulation, we require an accurate and high-throughput method. Here we described improved high-throughput combinatorial indexing-based single-nucleus chromatin accessibility and mRNA expression sequencing 2 (SNARE-Seq2) co-assay. This protocol involves fixing and permeabilizing the nucleus followed by tagmentation, chromatin barcode ligation, reverse transcription, pooling and splitting for the next rounds of cell barcode ligation into cDNA and accessible chromatin (AC) on the same nucleus. The captured cDNA and AC are co-amplified before splitting and enrichment into single-nucleus RNA and single-nucleus AC sequencing libraries. The protocol can also be applied to both nuclei and whole cells to capture mRNA in the cytoplasm. This improvement allows us to generate hundreds of thousands of data set of each assay and can be scaled up to half a million cells from a single experiment. The entire procedure can be complete in 3.5 d for generating joint single-nucleus RNA and single-nucleus ATAC sequencing libraries.

A high-throughput method for quantifying gene expression data from early Drosophila embryos

2005 ◽  
Vol 215 (7) ◽  
pp. 374-381 ◽  
Author(s):  
Hilde Janssens ◽  
Dave Kosman ◽  
Carlos E. Vanario-Alonso ◽  
Johannes Jaeger ◽  
Maria Samsonova ◽  
...  
Keyword(s):  
Gene Expression ◽  
Gene Expression Data ◽  
High Throughput ◽  
Expression Data ◽  
High Throughput Method ◽  
Drosophila Embryos

SNARE-seq2 v2

2021 ◽  
Author(s):  
Nongluk Plongthongkum ◽  
Dinh H Diep ◽  
Song Chen ◽  
Blue Lake ◽  
Kun Zhang
Keyword(s):  
Gene Expression ◽  
High Throughput ◽  
Chromatin Accessibility ◽  
Single Experiment ◽  
Data Set ◽  
Whole Cells ◽  
High Throughput Method ◽  
Single Nucleus ◽  
Accessible Chromatin ◽  
Entire Procedure

To study the heterogeneity of complex tissues by joint profiling of gene expression and its regulation, we require an accurate and high-throughput method. Here we described improved high-throughput combinatorial indexing-based single-nucleus chromatin accessibility and mRNA expression sequencing 2 (SNARE-Seq2) co-assay. This protocol involves fixing and permeabilizing the nucleus followed by tagmentation, chromatin barcode ligation, reverse transcription, pooling and splitting for the next rounds of cell barcode ligation into cDNA and accessible chromatin (AC) on the same nucleus. The captured cDNA and AC are co-amplified before splitting and enrichment into single-nucleus RNA and single-nucleus AC sequencing libraries. The protocol can also be applied to both nuclei and whole cells to capture mRNA in the cytoplasm. This improvement allows us to generate hundreds of thousands of data set of each assay and can be scaled up to half a million cells from a single experiment. The entire procedure can be complete in 3.5 d for generating joint single-nucleus RNA and single-nucleus ATAC sequencing libraries.

SNARE-seq2 v2

2021 ◽  
Author(s):  
Nongluk Plongthongkum ◽  
Dinh H Diep ◽  
Song Chen ◽  
Blue Lake ◽  
Kun Zhang
Keyword(s):  
Gene Expression ◽  
High Throughput ◽  
Chromatin Accessibility ◽  
Single Experiment ◽  
Data Set ◽  
Whole Cells ◽  
High Throughput Method ◽  
Single Nucleus ◽  
Accessible Chromatin ◽  
Entire Procedure

To study the heterogeneity of complex tissues by joint profiling of gene expression and its regulation, we require an accurate and high-throughput method. Here we described improved high-throughput combinatorial indexing-based single-nucleus chromatin accessibility and mRNA expression sequencing 2 (SNARE-Seq2) co-assay. This protocol involves fixing and permeabilizing the nucleus followed by tagmentation, chromatin barcode ligation, reverse transcription, pooling and splitting for the next rounds of cell barcode ligation into cDNA and accessible chromatin (AC) on the same nucleus. The captured cDNA and AC are co-amplified before splitting and enrichment into single-nucleus RNA and single-nucleus AC sequencing libraries. The protocol can also be applied to both nuclei and whole cells to capture mRNA in the cytoplasm. This improvement allows us to generate hundreds of thousands of data set of each assay and can be scaled up to half a million cells from a single experiment. The entire procedure can be complete in 3.5 d for generating joint single-nucleus RNA and single-nucleus ATAC sequencing libraries.

A Fluorescent High Throughput Method To Identify Potential Skin Sensitizers

Planta Medica ◽  
2016 ◽  
Vol 82 (05) ◽  
Author(s):  
C Avonto ◽  
AG Chittiboyina ◽  
D Rua ◽  
IA Khan
Keyword(s):  
High Throughput ◽  
High Throughput Method
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