What read length is recommended for the SMARTer Human TCR-v2 libraries?

For read through the entire V(D)J reagion use 600-cycle MiSeq Reagent Kit v3 with 2 x 300 base pair reads. To cover the entire CDR3 region and UMI use 2 x 150 base paired-end reads, following Illumina instrument and kit combinations provided in the the SMARTer Human TCR a/b Profiling Kit v2 User Manual - Table 5. Illumina instrument and reagent kit recommendations.Immune profiling [...]

What Illumina sequencers are compatible with the SMARTer Human TCR a/b Profiling Kit v2?

Sequencing libraries generated by the SMARTer Human TCR a/b Profiling Kit v2 are compatible with various Illumina sequncers - a complete list of Illumina instruments and reagent kit recommendations is provided in the SMARTer Human TCR a/b Profiling Kit v2 User Manual - Table 5. Illumina instrument and reagent kit recommendations.Immune profiling [...]

Do I have to perform any nucleotide trimming of the SMARTer smRNA-Sequencing reads prior to mapping?

The first three nucleotides of the first sequencing read (Read 1) derived from the SMART smRNA Template-Switching Oligo, must be trimmed prior to mapping. 15 As at the 3’-end derived from the 3’ smRNA dT Primer have to be trimmed prior to mapping. For detailed instructions, please, see the SMARTer smRNA-Seq Kit for Illumina User Manual - Appendix A: Sequencing Guidelines - C. Analysis of [...]

Can I run the SMARTer smRNA-Seq library on Illumina sequencer with a patterned flow cell?

We have not validated SMARTer® smRNA-Seq library on Illumina sequencer with a patterned flow cell, which may be less tolerant to the regions of low diversity (5'-end GC region; 3'-end polyA sequence)in the SMARTer® smRNA-Seq library.smRNA-Seq [...]

Do I need to remove ribosomal RNA prior to the SMARTer smRNA-Seq Kit workflow.

Ribodomal RNA removal with SMARTer smRNA-Seq library construction has not been validated and the step is not required, since it may compromise RNA, which is undesirablesmRNA-Seq [...]