title: Custom SFGF HEEBO Human Set v1.00 Array
status: Public on Jun 04 2010
contact.city: Boston
contact.first: Judy
contact.last: Yen
contact.email: jyen@bu.edu
contact.state: MA
contact.address: 620 Albany St., Rm 401H
contact.department: NEIDL/Microbiology
contact.country: USA
contact.institute: Boston University School of Medicine
contact.phone: 617-414-8918
organism: Homo sapiens
description: Probes include:
  Constitutive Exonic Probes (30,718): that will recognize all known transcripts of a gene.
  Alternatively Spliced / Skipped Exonic Probes (8,441): will recognize exons that are present in some, but not all transcripts of a gene.
  Non Coding RNA Probes (196): recogning non-protein coding transcripts (ribosomal RNAs, miRNAs).
  BCR / TCR Genic / Regional Probes (372): recognizing transcripts from genes that undergo somatic rearrangement.
  Other Human Probes (843): recognizing human mitochondrion derived DNA sequences.
  Viral or bacterial probes (1152): recognizing transcripts from viral and bacterial genes
  Controls include:
  A total of 4,189 controls are included in the set, including
  Negative Controls (398 and 194 buffer only): Buffer only and 410 random sequences are positioned throughout the set to assist in determining background.
  Positive Controls (864): recognizing a small subset of human transcripts.
  Doped Controls (1,384): recognizing non-human sequences that can be spiked into RNA samples
manufacture_protocol: The Human Exonic Evidence Based Oligonucleotide (HEEBO) array was developed by a group of researchers from Stanford University with collaborators from UCSF, Rockefeller, Basel, and the Stowers Institute. This custom microarray utilizes the HEEBO human oligonucleotide set which includes a subset of viral and bacterial probes. This set consists of 47,814 70mer probes that were designed using a transcriptome-based annotation of exonic structure for genomic loci.