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. Author manuscript; available in PMC: 2012 Oct 15.
Published in final edited form as: Dev Biol. 2011 Jul 23;358(2):356–367. doi: 10.1016/j.ydbio.2011.05.676

Table 1. Genes selected for analysis1.

Genbank2 Fold Change3 p-value4 Description (gene name)5 Unigene6 Sequence7 Probe8 ISH Signal9 Expression10
1 AI601442 14.32 0.025 si:dkeyp-95d10.1; Similar to DUSP23 Dr.78360 X X X lateral to hindbrain
2 Y13944 10.78 0.008 Homeo box B3a (hoxB3a) Dr.132502 X X X rhombomere 5/6
3 AW184433 8.86 0.001 Membrane-spanning 4-domains, subfamily A, member 17A.11 Dr.40434 X X
4 AW281753 8.68 0.004 Zwilling (zwi) Dr.81187 X X X rhombomere 3/5
5 AI667023 8.41 0.009 Myelin protein zero Dr.78005 X X
6 BI671376 7.29 0.012 Sb:cb1035 Dr.148642 X X
7 AI641757 6.99 0.014 Wu:fc23f06 – similar to HNF1-beta-like or HNF1 gamma Dr.15418 X X X rhombomere 5
8 AI957504 6.83 0.008 Wu:fd06c09 Dr.122018 X X X rhombomere 5
9 AF052249 5.82 0.032 Forkhead box D3 Dr.75816 X X X lateral to hindbrain
10 BM024206 5.45 0.000 cytochrome P450, family 26, subfamily b, polypeptide 1 (Cyp26b1) Dr.76359 X
11 AI942951 5.44 0.001 Wu:fc79c11 Dr.106214 X X X rhombomere 2/4
12 AI878761 5.41 0.025 EGF-like-domain, multiple 6 Dr.79266 X X X rhombomere 2/4
13 AI793592 4.96 0.003 Wu:fc51e09 Dr.150442 X X X rhombomere 3/5
14 AI461323 4.86 0.024 PR domain containing 12 Dr.23693 X X X multiple rhombomeres
15 AW567515 4.17 0.006 Tissue inhibitor of metalloproteinase 2b Dr.81512
16 BI534285 3.81 0.021 Zgc:55558 Dr.83658
17 AW279672 3.72 0.011 retinol dehydrogenase 12 (all-trans and 9-cis) RDH12 Dr.32031 X
18 BI430048 3.53 0.001 Zgc:92288 Dr.85849 X X
19 AI721660 3.28 0.005 Wu:fc30f10 Dr.150323 X X X rhombomere boundaries
20 BI845046 3.27 0.010 Wu:fj78f01 (Si:dkeyp-84a8.1); similar to Ngfi-A binding protein 1 Dr.83971 X X X rhombomere 3/5
21 AI965251 3.13 0.020 Wu:fc65f09 Dr.79031 X X X rhombomere 2/4/6
22 AI957828 3.10 0.004 Rho family GTPase 3b Dr.32839 X X
23 BI890305 3.03 0.005 Kin of IRRE like 3 Dr.75543 X X X multiple rhombomeres
24 BI880801 2.75 0.005 RAS guanyl releasing protein 3 (calcium and DAG-regulated) Dr.83871 X X
25 AY017309 2.73 0.009 Iroquois homeobox protein 5a (irx5a) Dr.83684 X X X rhombomere
26 AI722745 2.72 0.002 Transcription factor AP-2 alpha (tfap2a) Dr.8506 X X X lateral to hindbrain
27 AW115765 2.56 0.008 Zgc:55283 - similar to growth factor-receptor-binding protein 4 (grb4) Nck2 Dr.80366 X X X rhombomere 3/5
28 AA495100 2.50 0.004 fa06f01 ICRFzfls cDNA clone None
29 BG304232 2.46 0.008 Zgc:66107 - similar to Acheron (La ribonucleoprotein domain family, member 6) Dr.6975
30 BI672091 2.43 0.026 ft34d03; similar to cytoglobin Dr.29018 X X
31 AI416207 2.43 0.026 v-myc myelocytomatosis viral oncogene homolog 1, lung carcinoma derived b Dr.74192 X X X multiple rhombomeres
32 AI601770 2.40 0.006 Wu:fc11e07 Dr.78014 X X X lateral to hindbrain
33 BG728637 2.37 0.006 Wu:fj66h02 X X
34 AF229448 2.37 0.010 Jagged 1a Dr.83677 X
35 BM071271 2.31 0.006 Potassium channel tetramerisation domain containing 12.2 Dr.84702 X X X rhombomere 4
36 BG891906 2.31 0.000 Actin filament associated protein 1-like 1 Dr.16264 X X X lateral to hindbrain
37 BM026691 2.28 0.048 Zgc:65997 Dr.86139 X X
38 BM182277 2.20 0.020 Matrix metalloproteinase 2 (mmp2) Dr.76397 X X X rhombomere 5
39 BI710499 2.09 0.003 Cellular retinoic acid binding protein 1 (crabp1a) Dr.83594 X X X hindbrain vesicle?
40 BG727376 2.08 0.014 Wu:fa10d10 Dr.73730 X X X lateral mesoderm
41 U89380 2.07 0.014 Ephrin type-A receptor 4a (epha4a) Dr.47585 X X X rhombomere 3/5
42 AF277097 2.05 0.001 SRY-box containing gene 9b Dr.114501 X
43 BI897419 2.05 0.043 Limb and neural patterns (lnpa) Dr.6104 X X
44 BG883367 2.02 0.006 Transcribed locus; similar to tox3 Dr.85688 X X X rhombomere 3/5
45 BE605613 1.99 0.027 Wu:fj20a04 Dr.80832 X X
46 AI794528 1.97 0.012 Zinc finger, CCHC domain containing 24 Dr.76547 X X
47 BG985478 1.94 0.007 V-ets erythroblastosis virus E26 oncogene homolog 1a (ets1a) Dr.98888 X X X lateral to hindbrain
48 BI864920 1.92 0.064 Wu:fc17g06; similar to ankyrin 2,3/unc44 Dr.105556 X X X broad expression
49 AW420407 1.85 0.005 Transcribed locus Dr.2211
50 BM102082 1.81 0.036 Sulfatase FP2a Dr.12108 X X X broadly in hindbrain
51 AW077128 1.71 0.017 Growth arrest-specific 6 (gas6) Dr.80253 X X X rhombomere 5
52 BI980238 1.65 0.179 Transcribed locus - similar to spectrin Dr.121661 X X
53 AA494787 1.34 0.412 Zgc:174862 Dr.75213 X X
54 BI890937 1.28 0.062 Zgc:73377; similar to protein phosphatase 1 subunit 14A Dr.82617 X X X rhombomere 4
1

Each gene selected for analysis is listed in Table 1.

2

Genbank number for each clone analyzed.

3

Average fold increase for each gene across three replicates of meis3 versus meis3+hoxb1b injected embryos.

4

p-value for the fold increase given in column 3.

5

Gene name from Genbank and/or ZFIN.

6

Unigene number for each clone analyzed.

7

Purchased clones whose sequence matched the sequence deposited on the array are indicated by an X. Other clones were not pursued.

8

Clones for which in situ probes were successfully synthesized are indicated by an X. Other clones were not pursued.

9

Clones for which detectable expression patterns were identified are indicated by an X.

10

Brief description of expression pattern for each clone. Detailed expression patterns are shown in figure 2.