The SIRV set used was Lexogen SIRV Set 4 as documented for the LRGASP study (https://lrgasp.github.io/lrgasp-submissions/docs/reference-genomes.html). These are 69 synthetic RNA transcripts on the SIRV1-7 chromosomes made to mimic a complex human transcriptome with genes that are alternat...
The use of haplotype-specific transcripts improves sample annotation consistency.HLA-DQA1HLA-DRB4Microarray quality control (QC)BiomarkersDip testmRNAExact sample annotation in expression microarray datasets is essential for any type of pharmacogenomics research.#Candidate markers were explored through the ...
Similarly, the presence of a 6.8 kbp insertion in the middle of the SFB f coding region leads to transcripts for a defective SFB lacking the C-terminal half that contains HVa and HVb. As all reported SFBs of functional S haplotypes encode intact SFB, the fact that the partial loss-of-...
scaravilli m, koivukoski s, latonen l. androgen-driven fusion genes and chimeric transcripts in prostate cancer. front cell dev biol. 2021;9:623809. article pubmed pubmed central google scholar zahn h, steif a, laks e, eirew p, vaninsberghe m, shah sp, aparicio ...
Single-molecule protocols generate multi-kilobase reads longer than most transcripts allowing sequencing of complete haplotype isoforms. This allows partitioning the reads into two parental haplotypes. While the read length of the single-molecule protocols is long, the relatively high error rate limits ...
We also used Trinity50 for de novo assembly. To achieve a more complete assembly, we also downloaded and incorporated ginger expressed sequence tags (ESTs) from NCBI. The assembled transcripts were combined using CD-HIT v4.651. Characterization of repetitive sequences...
Several lines of evidence support roles for the cell adhesion molecule NrCAM in addictions. Fine mapping within a chromosome 7 region that contains previously linked and associated genomic markers identifies NrCAM haplotypes that are associated with subs
Similarly, the presence of a 6.8 kbp insertion in the middle of the SFB f coding region leads to transcripts for a defective SFB lacking the C-terminal half that contains HVa and HVb. As all reported SFBs of functional S haplotypes encode intact SFB, the fact that the partial loss-of-...
The First Transcriptional Map of the Human Major Histocompatibility Complex Reveals New Transcripts and Haplotype-specific Pattern of Expressionalternative pathwayarthritiscomplementimmune complexesinflammationMonoclonal antibodies have been the most successful therapeutics ever brought to cancer treatment by immune ...
Biomarker Research 2014, 2:17 http://www.biomarkerres.org/content/2/1/17 METHODOLOGY Open Access The use of haplotype-specific transcripts improves sample annotation consistency Nicole Hartmann1*†, Evert Luesink1†, Edward Khokhlovich1, Joseph D Szustakowski1, Lukas Baeriswyl1, Joshua ...