The BioInvestigationIndex (BII)

Title:

Gene expression analysis in gut biopsies of Crohn's Disease patients and patients with Spondylarthropathy

Organism(s):

Homo sapiens

Description:

A focussed microarray chip was constructed specifically for studying basal colonic gene expression in patients with Spondyloarthropathy (SpA) and Crohn's disease (CD) (ref: PMID 16476712). These focus microarrays were used 1) to study common changes in gene expression between SpA and CD, providing early markers in the follow-up study of patients with SpA and particularly these patients that evolve into clinically overt CD; and 2) to identify new candidate genes for CD by integrating gene expression data with genetic information. Keywords: Crohn's Disease, Spondylarthropathy, biopsies This experiment was done in a dye-swap design in which all samples of interest were compared to a pooled sample.

Design(s):

transcription profiling by array

Experimental factor(s):

rna from unaffected colon biopsies. patients clinical characteristics 8 recorded
not specified Female, Age 21, no SpA, no CD, normal gut histology, no medication Female, Age 69, no SpA, no CD, normal gut histology, no medication Female, Age 50, no SpA, no CD, normal gut histology, no medication Male, Age 50, no SpA, no CD, normal gut histology, no medication Male, Age 76, no SpA, no CD, normal gut histology, no medication Female, Age 64, no SpA, no CD, normal gut histology, no medication Male, Age 51, no SpA, no CD, normal gut histology, no medication
rna from unaffected colon biopsies. patients clinical characteristics 5 recorded
not specified Male, Age Male, Age 45, Clinical SpA, CD Female, Age Male, Age 40, Clinical SpA, CD

Publication(s):

Laukens D, Peeters H, Cruyssen BV, Boonefaes T, Elewaut D, De Keyser F, Mielants H, Cuvelier C, Veys EM, Knecht K, Van Hummelen P, Remaut E, Steidler L, De Vos M, Rottiers P
Altered gut transcriptome in spondyloarthropathy. PubMed:16476712

Sample attribute(s):

AS 1 recorded
ankylosing spondylitis
Operation 3 recorded
resection No fistula
sex 2 recorded
female male
Familial CD 4 recorded
No yes no Yes
med 2 2 recorded
non-steroidal anti-inflammatory drug azathioprine
Disease location 4 recorded
ileal and colonic involvement ileal involvement only Ileal and colonic involvement colonic involvement only
age of onset 2 recorded
<40 >=40
CD behavior 4 recorded
Penetrating Stricturing non-penetrating, non-stricturing non-stricturing, non-penetrating
meds 8 recorded
immunosuppressive agent none mesalamine sulfasalazine non-steroidal anti-inflammatory drug corticosteroid Remicade (Infliximab) steroid
SpA 3 recorded
No spondyloarthropathy ?
organism 1 recorded
Homo sapiens
CARD15 status 3 recorded
not carrying a mutant allele for rs.2066844, rs.2066845 or rs.574393 carriage of at least one mutant allele for rs.2066844, rs.2066845 or rs.574393 unknown
age 30 recorded
37 year 21 year 45 year 49 year 34 year 36 year 26 year 20 year 29 year 28 year 50 year 48 year 31 year 24 year 64 year 53 year 41 year 38 year 69 year 44 year 32 year 76 year 42 year 27 year 68 year 58 year 47 year 51 year 66 year 40 year
CD 2 recorded
Crohn's disease no
Label 2 recorded
Cy3 Cy5
AS type 2 recorded
peripheral axial
uSpA 1 recorded
undifferentiated SpA
histology 3 recorded
normal gut chronic gut acute gut