Applied Bioinformatics Laboratories Ordering Services

Applied Bioinformatics Laboratories Applied Bioinformatics Laboratories Ordering Services
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Applied Bioinformatics Laboratories Applied Bioinformatics Laboratories Ordering Services

Experienced scientists at NYU School of Medicine’s Applied Bioinformatics Laboratories provide researchers with computational analysis of high-throughput genomic data.

For bioinformatics analysis of metagenomics and Hi-C sequencing (Hi-C-seq) data, de novo genome assembly, or de novo transcriptome assembly, contact us for a customized project price quote. 

Login to iLab to request any of our technologies, for more information about pricing for a customized project, or any of the services below. Learn more about accessing iLab.

RNA-sequencing Analysis

You receive the following:

  • a summary of the analysis
  • individual BigWig or TDF files for visualization
  • a principal component analysis (PCA) plot for assessment of sample variations
  • a complete gene expression table (logarithm of fold change, statistics, normalized expression value of each sample, and annotation for each gene)

Additional analyses, such as gene-ontology term or pathway analysis, supervised or unsupervised clustering of differentially expressed genes, and Venn diagrams of each gene list, are also available. Each of these may be subject to an additional charge.

ChIP-seq, ChIRP-seq, and ATAC-seq Analysis

You receive the following:

  • a summary of the analysis
  • individual BigWig or TDF files for visualization
  • peak calling results (BED file)
  • annotation of peaks

Additional analysis of overlapped genome regions of different factors may be subject to an additional charge.

Single-Cell RNA-Sequencing Analysis

You receive the following: 

  • a summary of the analysis
  • a table of normalized gene expression values for each sample/cell
  • identification of highly variable genes
  • dimensionality reduction, using principal component analysis (PCA), independent component analysis (ICA), or t-distributed stochastic neighbor embedding (t-SNE)
  • unsupervised clustering
  • discovery of differentially expressed markers

Additional analyses, such as gene-ontology term or pathway analysis, supervised or unsupervised clustering of differentially expressed genes, and Venn diagrams of each gene list, are also available. Each of these may be subject to an additional charge.

lncRNA Discovery

You receive the following: 

  • a summary of the analysis
  • individual BigWig or TDF files for visualization
  • a PCA plot for assessment of sample variations
  • a complete gene expression table (logarithm of fold change, statistics, normalized expression value of each sample, and annotation for each gene)

Additional analyses, such as gene-ontology term or pathway analysis, supervised or unsupervised clustering of differentially expressed genes, and Venn diagrams of each gene list, are also available. Each of these may be subject to an additional charge.

Whole-exome and Targeted Sequencing Analysis

You receive the following:

  • aligned, sorted, and recalibrated BAM files
  • coverage summary
  • high-confidence mutation and/or SNP calls, raw and after filtering and annotation
  • insertions and deletions

Pathway analysis and other specific analyses are provided as well and may be subject to an additional charge. Results are delivered in one to two weeks, depending on the queue, on a first-come, first-served basis.

Whole-genome Sequencing Analysis

You receive the following:

  • sorted and aligned BAM files
  • genome coverage summary
  • high-confidence mutation and/or SNP calls, raw and after filtering and annotation
  • insertions and deletions 
  • recalibrated BAM files
  • copy-number profiles of sample pairs (both tumor and normal, when both are available) 
  • raw structural variants 
  • circus plots of structural variants

Pathway analysis and other specific analysis may be subject to an additional charge. You receive results in two to three weeks, depending on the queue, and on a first-come, first-served basis.

Charges for customized projects are based on a discussion and assessment of the work.

Bisulfite Sequencing Analysis

You receive the following: 

  • genome-wide quality, alignment, and methylation summary
  • aligned BAM files
  • genome browser tracks
  • differential methylation analysis with annotation

Pathway analysis and other specific analysis may be subject to an additional charge. You receive results in two to three weeks, depending on the queue, and on a first-come, first-served basis.

Charges for customized projects are based on a discussion and assessment of the work.

Fees for Rush Samples

We provide results in 7 to 10 days for researchers who request rush service. If you need rush service, please indicate this when you submit your request in iLab. All rush service fees are double the regular rates.