title: SCExV: a webtool for the analysis and visualisation of single cell qRT-PCR data.
abstract: BACKGROUND
  Single cell gene expression assays have become a powerful tool with which to dissect heterogeneous populations. While methods and software exist to interrogate such data, what has been lacking is a unified solution combining analysis and visualisation which is also accessible and intuitive for use by non-bioinformaticians, as well as bioinformaticians.
  
  
  RESULTS
  We present the Single cell expression visualiser (SCExV), a webtool developed to expedite the analysis of single cell qRT-PCR data. SCExV is able to take any data matrix of Ct values as an input, but can handle files exported by the Fluidigm Biomark platform directly. In addition, SCExV also accepts and automatically integrates cell surface marker intensity values which are measured during index sorting. This allows the user to directly visualise relationships between a single cell gene expression profile and the immunophenotype of the interrogated cell.
  
  
  CONCLUSIONS
  SCExV is a freely available webtool created to import, filter, analyse, and visualise single cell gene expression data whilst being able to simultaneously consider cellular immunophenotype. SCExV is designed to be intuitive to use whilst maintaining advanced functionality and flexibility in how analyses are performed.
authors.affiliation: Division of Molecular Hematology, BMC B12, Lund University, Sölvegatan 19, Lund, 22184, Sweden. stefan.lang@med.lu.se.|Lund Stem Cell Center, Lund University, Lund, 22184, Sweden. stefan.lang@med.lu.se.
authors.forename: Stefan
authors.initials: S
authors.lastname: Lang
authors.affiliation: Division of Molecular Hematology, BMC B12, Lund University, Sölvegatan 19, Lund, 22184, Sweden. amol.ugale@med.lu.se.|Lund Stem Cell Center, Lund University, Lund, 22184, Sweden. amol.ugale@med.lu.se.
authors.forename: Amol
authors.initials: A
authors.lastname: Ugale
authors.affiliation: Division of Molecular Hematology, BMC B12, Lund University, Sölvegatan 19, Lund, 22184, Sweden. eva.erlandsson@med.lu.se.|Lund Stem Cell Center, Lund University, Lund, 22184, Sweden. eva.erlandsson@med.lu.se.
authors.forename: Eva
authors.initials: E
authors.lastname: Erlandsson
authors.affiliation: Division of Molecular Hematology, BMC B12, Lund University, Sölvegatan 19, Lund, 22184, Sweden. goran.karlsson@med.lu.se.|Lund Stem Cell Center, Lund University, Lund, 22184, Sweden. goran.karlsson@med.lu.se.
authors.forename: Göran
authors.initials: G
authors.lastname: Karlsson
authors.affiliation: Division of Molecular Hematology, BMC B12, Lund University, Sölvegatan 19, Lund, 22184, Sweden. david.bryder@med.lu.se.|Lund Stem Cell Center, Lund University, Lund, 22184, Sweden. david.bryder@med.lu.se.
authors.forename: David
authors.initials: D
authors.lastname: Bryder
authors.affiliation: Division of Molecular Hematology, BMC B12, Lund University, Sölvegatan 19, Lund, 22184, Sweden. shamit.soneji@med.lu.se.|Lund Stem Cell Center, Lund University, Lund, 22184, Sweden. shamit.soneji@med.lu.se.
authors.forename: Shamit
authors.initials: S
authors.lastname: Soneji
mesh_terms: D000818:Animals; D004247:DNA / Q000032:analysis*; D020407:Internet; D051379:Mice; D060888:Real-Time Polymerase Chain Reaction; D013234:Stem Cells / Q000166:cytology / Q000378:metabolism; D014584:User-Computer Interface
chemical_list: D004247:DNA