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Table 3 Clusters of genes significantly over/under-expressed in Mk cells (pool 'A') vs. CD34+ cells (pool 'B')

From: TRAM (Transcriptome Mapper): database-driven creation and analysis of transcriptome maps from multiple sources

Chr and Location

Cluster Start

Cluster End

(Cluster size)

'A'/'B' Ratio

q-value

Genes in the cluster

chr19 19p13.3

827,831

856,246 (28,416)

0.103

0.00011

AZU1- PRTN3- ELANE-

chr4 4q11-q12

57,514,154

57,687,893 (173,740)

0.140

0.00084

HOPX-Hs.630172 Hs.121443 Hs.673386 Hs.613041 Hs.677243 Hs.601479 Hs.44210 Hs.566128SPINK2-

chr10 10q23-q24

97,951,455

98,098,321 (146,867)

0.172

0.00084

BLNK-Hs.716018 Hs.673979 Hs.444049 Hs.688648 Hs.679276DNTT-

chr1 1p36

26,644,411

26,647,014 (2,604)

0.192

0.00084

CD52- Hs.597423-

chr1 1q21

153,330,330

153,363,549 (33,220)

0.212

0.00011

S100A9- S100A12-LOC645900S100A8-

Chr6 6p21.3

32,407,647

32,611,429 (203,783)

0.217

0.00011

HLADRA-LOC10028939 Hs.601001 Hs.544645 Hs.693189 Hs.654238 HLADRB5 Hs.664382 Hs.611927 Hs.606311HLADRB1-Hs.706474 Hs.625753 Hs.691818HLADQA-

chr8 8p23.1

6,835,171

6,875,816 (40,646)

0.233

0.00084

DEFA1-DEFA1BDEFA3-

chr2 2p22.3

32,853,129

33,624,576 (771,448)

6.738

0.00084

TTC27+Hs.616001 Hs.664352 Hs.639709 Hs.683829 Hs.678473 Hs.623026 LOC285045 LOC100271832LTBP1+

chr11 11q12.2-q13.1

61,567,097

61,634,825 (67,729)

7.059

0.00084

FADS1+Hs.651782 Hs.621796 LOC100131326 Hs.667454FADS2+

chr17 17q21.32

42,422,491

42,466,873 (44,383)

7.976

0.00084

GRN+Hs.602870 FAM171A2 LOC390800ITGA2B+

chr12 12p13.31

7,966,397

8,088,892 (158,906)

8.033

0.00084

SLC2A14+Hs.664258 Hs.539507 Hs.668117 LOC100130582 Hs.662096SLC2A3+

chr11 11p15.5

5,254,059

5,271,087 (21,857)

8.722

0.00010

HBD+ Hs.20205+Hs.295459 Hs.702082 Hs.702189HBG1+

chr12 12p13.3

6,058,040

6,347,427 (289,388)

10.492

0.00084

VWF+Hs.605384 Hs.539512 Hs.712104CD9+

chr4 4q12-q21

74,719,013

74,964,997 (245,985)

11.289

0.00000

PF4V1+ CXCL1+Hs.708652 LOC642958PF4+Hs.552264PPBP+CXCL5+ Hs.598417 Hs.603888 Hs.617230CXCL3+PPBPL2+ LOC643014 Hs.719458CXCL2+

  1. Chr: chromosome; Cluster Start/End: chromosomal coordinates for each gene cluster. Bold and '+': over-expressed gene; bold and '-': under-expressed gene; '+' or '-': gene expression value higher or lower than the median value, respectively; gene name without '+' or '-' symbols: no expression value available in the investigated dataset. Analysis was performed using default parameters (see "Methods" section), choosing to list all colocalized known genes and mapped EST clusters, regardless of the availability of expression values for them in the investigated samples. Clusters are sorted by increasing 'A'/'B' ratio. Only the 7 cluster with the highest and the 7 cluster with the lowest cluster mean gene expression are shown (out of a total of 31 significantly over- and 42 significantly under-expressed identified clusters). The complete results for this model are available along with TRAM software.
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BMC Genomics

ISSN: 1471-2164

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