Trueseq stranded total rna sample prep kit

Manufactured by Illumina

The TrueSeq Stranded Total RNA Sample Prep kit is a lab equipment product from Illumina. It is designed for the preparation of RNA samples for sequencing on Illumina platforms. The kit enables the conversion of total RNA into a library of template molecules suitable for subsequent cluster generation and DNA sequencing.

Automatically generated - may contain errors

Lab products found in correlation

Dnase 1, by Thermo Fisher Scientific (4 mentions) Nanodrop nd 1000 spectrophotometer, by Thermo Fisher Scientific (3 mentions) Agilent rna 6000 pico kit, by Agilent Technologies (2 mentions) Trueseq stranded rna seq library prep kit, by Illumina (2 mentions) Trizol reagent, by Thermo Fisher Scientific (2 mentions) Agilent 2100 bioanalyzer, by Agilent Technologies (2 mentions) Nanodrop nd 1000, by Thermo Fisher Scientific (1 mentions) Anti cdkn2a p16ink4a antibody, by Abcam (1 mentions) Casava 1, by Illumina (1 mentions) Rneasy plus kit, by Qiagen (1 mentions) Hiseq 3000, by Illumina (1 mentions)

3 protocols using trueseq stranded total rna sample prep kit

RNA Isolation and Sequencing for Infection Analysis

Cited 1 time

Check if the same lab product or an alternative is used in the 5 most similar protocols

Total RNA was isolated from five independent biological replicates of each infected and non-infected group using TRIzol reagent (Life Technologies, Carlsbad, CA, USA) according to the manufacturer’s instructions and as previously described^{39 (link)}. The RNA samples were treated with DNase I (1 U per µg of RNA) (Thermo Scientific, Lithuania, EU) at 37 °C for 1 h, and the RNA concentration was determined from the A260/A280 ratio using a NanoDrop ND1000 (Thermo Scientific, USA). In addition, RNA integrity was evaluated using an Agilent 2100 Bioanalyzer and a Pico Agilent RNA 6000 kit (Agilent Technologies, Santa Clara, CA, USA) according to the manufacturer’s instructions. rRNA depletion was performed using a poly(A) magnetic bead capture protocol and a TrueSeq Stranded Total RNA Sample Prep kit (Illumina) according to the manufacturer´s instructions. Libraries were prepared using a TrueSeq Stranded RNA-seq Library Prep Kit (Illumina), according to the manufacturer’s instructions.

Aoki J.I., Muxel S.M., Zampieri R.A., Müller K.E., Nerland A.H, & Floeter-Winter L.M. (2019). Differential immune response modulation in early Leishmania amazonensis infection of BALB/c and C57BL/6 macrophages based on transcriptome profiles. Scientific Reports, 9, 19841.

+ Open protocol

+ Expand

RNA Isolation and Library Preparation

Check if the same lab product or an alternative is used in the 5 most similar protocols

Total RNA from five independent biological replicates was isolated using TRIzol reagent (Life Technologies) according to the manufacturer’s instructions. RNA samples were treated with DNase I (1 U per 1 µg of RNA) (Thermo Scientific) at 37 °C for 1 h, and the RNA concentration was determined using a spectrophotometer Nanodrop ND1000 spectrophotometer (Thermo Scientific). In addition, RNA integrity was evaluated using an Agilent 2100 Bioanalyzer and a Pico Agilent RNA 6000 kit (Agilent Technologies) according to the manufacturers’ instructions. rRNA depletion was performed using a poly (A) magnetic beads capture protocol and a TrueSeq Stranded Total RNA Sample Prep kit (Illumina) according to the manufacturers’ instructions. Libraries were prepared using a TrueSeq Stranded RNA-seq Library Prep kit (Illumina), according to the manufacturers’ instructions.

Aoki J.I., Muxel S.M., Laranjeira-Silva M.F., Zampieri R.A., Müller K.E., Nerland A.H, & Floeter-Winter L.M. (2020). Dual transcriptome analysis reveals differential gene expression modulation influenced by Leishmania arginase and host genetic background. Microbial Genomics, 6(9), mgen000427.

+ Open protocol

+ Expand

Comprehensive RNA and Protein Expression Profiling

Cited 4 times

Check if the same lab product or an alternative is used in the 5 most similar protocols

Whole transcriptome RNA expression was determined by RNASeq. Briefly, cell line RNA was isolated with an RNeasy Plus kit (Qiagen) and Illumina compatible libraries made with a TrueSeq Stranded Total RNA Sample Prep Kit (Illumina, Inc.). Libraries were sequenced with an Illumina HiSeq3000 instrument using the 75-bp paired-end format. Post sequencing, BCL files were converted to “FastQ.gz” format and individual sample libraries de-multiplexed using CASAVA 1.8.2 software (Illumina) with no mismatches. FASTQ files were checked for read quality using FastQC, aligned to hg19 using TopHat [16 (link)], and alignment quality was checked with RSeQC [17 (link)]. BAM files with mapped reads were sorted and outputted with SAMtools [18 (link)], and reads mapping to genes were counted with HTSeq-count [19 (link)]. Reads were then normalized using the trimmed mean of M (TMM) method implemented in the R Bioconductor package edgeR to generate expression values for each gene [20 (link)]. Protein expression for p16 was determined following Reverse Phase Protein Array analysis of cell lysates as previously described [21 (link)], using anti-CDKN2A/p16INK4a antibody (catalogue # ab81278) from Abcam.

Gadhikar M.A., Zhang J., Shen L., Rao X., Wang J., Zhao M., Kalu N.N., Johnson F.M., Byers L.A., Heymach J., Hittelman W.N., Udayakumar D., Pandita R.K., Pandita T.K., Pickering C.R., Redwood A.B., Piwnica-Worms H., Schlacher K., Frederick M.J, & Myers J.N. (2017). CDKN2A/p16 deletion in head and neck cancer cells is associated with Cdk2 activation, replication stress, and vulnerability to Chk1 inhibition. Cancer research, 78(3), 781-797.

+ Open protocol

+ Expand

About PubCompare

Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.

We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.

However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.

Ready to get started?

Revolutionizing how scientists
search and build protocols!