Neerja Katiyar Email and Phone Number

• Provided end-to-end support for bioinformatics projects including budget and time estimation for data analysis, processed raw sequence read data, provided data analysis, interpretation for variety of bioinformatics projects including single cell RNA-Seq, Bulk RNA-Seq, CLIP-seq, DNA methylation and others, and helped researchers publish results in journals and conferences.• Organized and instructed bioinformatics data analysis hands-on workshops on Programming with R, Graphics with ggplot2, RNA-Seq analysis and others.

• Demultiplexing and quality control of sequencing data from HiSeq, MiSeq and NextSeq sequencing systems.• Maintain the SMRT analysis server and PacBio system at the genomics core facility• RNA-Seq, Var-Seq and Chip-Seq analysis using R/Bioconductor packages.• Protein abundance data analysis from Mass Spectrometry.• VAAST pipeline for variant annotation and analysis.• Generated whole genome assemblies using leading software such as Velvet, SOAP-denovo and annotated them using MAKER• Database management for the customers submitting sequencing data and internal blast server.• Maintaining Galaxy server at University of California, Riverside.• Organized and instructed NGS data analysis, Programming in R, Advanced graphics and Linux workshops at UCR.• Supervised summer intern and graduate students for bioinformatics projects.• Prepared recharge statements and billing for bioinformatics projects.

• Demultiplexing and quality control of sequencing data from HiSeq, MiSeq and NextSeq sequencing systems.• RNA-Seq, Var-Seq and Chip-Seq analysis using R/Bioconductor packages.• Database management for the customers submitting sequencing data and internal blast server.• Organized and instructed NGS data analysis, Linux workshops at UCR.• Supervised summer intern and graduate students for bioinformatics projects.

• Analyzed Copy Number Variation data for Autism. • Developed a pipeline for detection of overlap between CTCF-binding motif locations with the peak co-ordinates determined by Genetrack software using Python and BedTools for Chip-Exo data analysis. • Determined the sequence of Y chromosome from whole genome alignment.• Studied genetic diversity and population structure of the endangered marsupial Sarcophilus harrisii.

• Analyzed protein-protein interaction data for functional annotation of Treponema pallidum and Streptococcus pneumonia.• Annotated termite EST and RNA-Seq sequence reads for termite meta-transcriptome using MEGAN.• Developed a pipeline for using disordered regions of protein for functional annotation.