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Tsapogas et al.

Supplementary data.

These supplements are composed of two major groups of data, the first display the full dCHIP analysis and the second part display tables containing the probabilistic state analysis.

dCHIP analysis of B cell lines.

Hierarchical tree clusters were generated using the dChip program (Li and Wong, http://biosun1.harvard.edu/complab/dchip/). The pro-B, pre-B, B and plasma cell lines

were treated as replicates. Expression values were calculated according to the PM-only model and genes were filtered according to 0,50 < standard deviation/mean between <

10,00 and presence (P) call in the array used >= 10%. The full cluster analysis has been

split manually into 4 figures, each one displaying genes found over expressed at a defined

stage. The colour range is from blue (-3) to red (3).

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Supplementary tables:

The data are generated by the probabilistic state analysis. Classification of genes with apparently restricted expression pattern in the analysis into functional groups was performed manually using the NCBI database. Non-defined genes in the data set were resubmitted in a Blast search into Genebank allowing for the identification of most of these entries. The tables are organized based on expression patterns as indicated in legends. Table VII contains a summary of the data obtained.

pro-B cells pre-B cells B cells plasma cells

Present Absent Absent Absent

Proba bility

Proba bility 2

Pattern 2

GeneBankTM Accession No

Gene Protein

type

0.934 0.019 MAAA U01530 T-cell acute lymphocytic leukemia 1/SCL TF

0.934 0.019 MAAA AI553024 similar to: mPLZF(B)=promyelocytic leukemia zinc finger protein {alternatively spliced}

TF

0.934 0.019 MAAA L09600 Nuclear factor, erythroid derived 2 TF

0.934 0.019 MAAA X15763 GATA-binding protein 1 TF

0.934 0.019 MAAA AB000096 GATA-binding protein 2 TF

0.934 0.019 MAAA M97200 Erythroid Kruppel-like factor TF

0.934 0.019 MAAA M21829 Ecotropic viral integration site 1 (Evi-1) TF

0.934 0.019 MAAA M31885 Inhibitor of DNA binding 1 (Id1) TF

0.934 0.019 MAAA AI850893 General transcription factor III A (Gtf3a) TF

0.934 0.019 MAAA X80638 rhoC STP

0.934 0.019 MAAA L18868 Thromboxane A synthase 1, platelet STP

0.934 0.019 MAAA U36488 Embryonic stem cell phosphatase(Esp) STP

0.934 0.019 MAAA AF087687 calcium-binding protein S100A1 STP

0.934 0.019 MAAA AF033655 PFTAIRE protein kinase 1 STP

0.934 0.019 MAAA AI851258 dual-specificity Rho- and Arf-GTPase activating protein1 (Drag1) STP

0.934 0.019 MAAA Z31362 Tx01 STP

0.934 0.019 MAAA M17979 Epidermal growth factor binding protein type A STP

0.934 0.019 MAAA U90435 flotillin MP

0.934 0.019 MAAA AW046032 thrombin receptor (Cf2r) MP

0.934 0.019 MAAA L03529 thrombin receptor mRNA MP

0.934 0.019 MAAA AW060556 stabilin-1 MP

0.934 0.019 MAAA AB012808 mBOCT MP

0.934 0.019 MAAA J04634 Lymphocyte antigen 64 MP

0.934 0.019 MAAA AI596094 transferrin receptor 2 (Trfr2) MP

0.934 0.019 MAAA AA967194 similar to aquaporin 9 MP

0.934 0.019 MAAA L04678 Integrin beta 4 MP

0.934 0.019 MAAA U45980 alpha (1,3) fucosyltransferase Fuc-TVII ME

0.934 0.019 MAAA AA824102 3 beta-hydroxy-delta 5-C27-steroid oxidoreductase ME

0.934 0.019 MAAA AB013850 peptidylarginine deiminase type IV ME

0.934 0.019 MAAA AI840198 -N-acetyltransferase 6 (Nat6) ME

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-hyaluronoglucosaminidase 1 (Hya1), fusion 2 (Fus2), and hyaluronoglucosaminidase 3 (Hyl3)

0.934 0.019 MAAA AB027125 AKR1C13 mRNA for aldo-keto reductase AKR1C13 ME

0.934 0.019 MAAA AW121619 cytochrome P450 side chain cleavage enzyme 11a1 (Cyp11a) ME 0.934 0.019 MAAA AV092014 -peptidoglycan recognition protein (Pglyrp)

-TAG7-like protein

Cy

0.934 0.019 MAAA U83509 angiopoietin-1 Cy

0.934 0.019 MAAA U49513 Small inducible cytokine A9 Cy

0.934 0.019 MAAA AF076482 Tumor necrosis factor super family 3-like Cy

0.934 0.019 MAAA X54542 Interleukin 6 Cy

0.934 0.019 MAAA V00743 Alpha fetoprotein SP

0.934 0.019 MAAA AA867778 actinin, alpha 1 (Actn1) CP

0.934 0.019 MAAA U04354 ADSEVERIN mRNA CP

0.934 0.019 MAAA V00714 Hemoglobin alpha, adult chain 1 CP

0.934 0.019 MAAA AA690863 similar to rat putative UA20 protein (Ua20) mRNA

0.934 0.019 MAAA AI848723

0.934 0.019 MAAA AI181346

0.934 0.019 MAAA AW229127

0.934 0.019 MAAA AI646638

0.791 0.157 PAMA AI853444

Table I: List of genes with expression restricted to the pro-B cell compartment.

Table shows genes that were found to be expressed exclusively in pro-B cells. Genes were considered as "Present" (P) or "Absent" (A) depending on their expression or lack of expression, respectively, in all four cell lines representing a particular B cell developmental stage. Genes that were not found to be uniformly Present or Absent within a stage-specific cell line group were classified as "Mixed" (M). The list includes only the genes that were found to have a pro-B cell specific expression/presence pattern (PAAA) with a probability higher than 0.7, following Present/Absent statistical analysis. For every gene, the second highest probability to have another expression pattern is indicated (Probability 2), as well as the corresponding pattern (Pattern 2). Abbreviations used: TF: Transcription Factor, STP:

Signal Transduction Protein, MP: Membrane Protein, ME: Metabolic Enzyme, Cy:

Cytokine, SP: Secreted Protein, CP: Cytoplasmic Protein.

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pro-B cells pre-B cells B cells plasma cells

Absent Present Absent Absent

Proba bility

Proba bility 2

Pattern 2

GeneBankTM Accession No

Gene Protein

type

0.790 0.157 APMA D16503 Lymphoid enhancer binding factor 1 TF

0.790 0.157 APMA D16503 Lymphoid enhancer binding factor 1 TF

0.934 0.021 AMAA X70298 SRY-box containing gene 4 (sox-4) TF

0.712 0.243 AMAA U58972 Growth factor independence 1 (Gfi1) TF

0.712 0.243 AMAA AW209414 Kruppel-type zinc finger protein KROX-25 TF

0.934 0.021 AMAA M60474 Myristoylated alanine rich protein kinase C substrate STP

0.790 0.157 APMA AJ236881 SIT protein STP

0.790 0.157 APMA AI853706 Rho guanine nucleotide exchange factor (GEF) 3 (Arhgef3) STP 0.790 0.157 APMA U10551 GTP binding protein (gene over-expressed in skeletal muscle) STP

0.790 0.157 APMA AV012348 potassium channel beta 2 subunit (I2RF5) MP

0.790 0.157 APMA U12620 Dipeptidylpeptidase 4 MP

0.790 0.157 APMA X98471 Epithelial membrane protein 1 MP

0.712 0.243 AMAA AF002701 Glial cell line derived neurotrophic factor family receptor alpha 2 MP

0.790 0.157 APMA M29961 Glutamyl aminopeptidase ME

0.934 0.021 AMAA AV371846 Similar to Ena-vasodilator stimulated phosphoprotein (Evl) CP

0.712 0.243 AMAA U08373 Calmegin CP

0.712 0.243 AMAA M29475 Recombination activating gene 1 CP

0.934 0.021 AMAA L33954 clone BPS3.23 germline Ig variable region heavy chain precursor gene Ig

0.934 0.021 AMAA M12376 immunoglobulin H-chain V-region pseudogene Ig

0.934 0.021 AMAA AF036736 clone BPS3.19 immunoglobulin heavy chain variable region precursor gene Ig

0.934 0.021 AMAA X02466 germline immunoglobulin V(H)II gene H17 Ig

0.934 0.021 AMAA X02463 germline immunoglobulin V(H)II gene H8 Ig

0.934 0.021 AMAA AF036738 clone BPS5.16 immunoglobulin heavy chain variable region precursor gene Ig

0.934 0.021 AMAA L28059 Ig B cell antigen receptor gene Ig

0.790 0.157 APMA AF042086 immunoglobulin heavy chain V DSP2.7-JH2 region (Igh) gene Ig 0.790 0.157 APMA AF025445 clone BHS2.19 immunoglobulin heavy chain variable region precursor gene Ig 0.790 0.157 APMA U62386 immunoglobulin heavy and light chain variable region mRNA, Ig 0.790 0.157 APMA U10410 recombinant antineuraminidase single chain Ig VH and VL domains mRNA Ig 0.790 0.157 APMA AF059706 clone N1.1.b immunoglobulin heavy chain VDJ region gene Ig

0.790 0.157 APMA AF042798 immunoglobulin heavy chain gene, CDR3 region Ig

0.790 0.157 APMA X05557 V(preB)1 gene 4.6 kb upstream of lambda5 locus Ig

0.790 0.157 APMA X04748 Immunoglobulin lambda chain 5 Ig

0.712 0.243 AMAA X02468 germline immunoglobulin V(H)II gene H18 Ig

0.712 0.243 AMAA AF036737 clone BPS3.26 immunoglobulin heavy chain variable region precursor, gene Ig 0.712 0.243 AMAA AF099973 schlafen2 (Slfn2) mRNA

Table II: List of genes with expression restricted to pre-B cells.

Table shows genes that were found to be expressed exclusively in pre-B cells.

Genes were considered as "Present" (P), "Absent" (A) or "Mixed" (M) with the

same criteria as in Table I. The list includes only the genes that were found to have

a pre-B cell specific expression pattern (APAA) with a probability higher than 0.7,

following Present/Absent statistical analysis. For every gene, the second highest

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probability to have another expression pattern is indicated (Probability 2), as well as the corresponding pattern (Pattern 2). Abbreviations used: TF: Transcription Factor, STP: Signal Transduction Protein, MP: Membrane Protein, ME: Metabolic Enzyme, CP: Cytoplasmic Protein, Ig: Immunoglobulin Molecule.

pro-B cells pre-B cells B cells plasma cells

Absent Absent Present Absent

Proba bility

Proba bility 2

Pattern 2

GeneBankTM Accession No

Gene Protein

type

0.709 0.246 AAMA AF017021 B-ATF mRNA TF

0.709 0.246 AAMA U87620 Ets transcription factor Spi-B TF

0.709 0.246 AAMA U87619 129SV encoding transcription factor Spi-B form IA TF

0.709 0.246 AAMA AB020808 TLR6 MP

0.709 0.246 AAMA AF108020 lysophospholipid receptor B2 (lpb2) MP

0.709 0.246 AAMA AB009377 caspase-activated DNase (CAD) ME

0.709 0.246 AAMA J00475 germline IgH chain gene, DJC region- segment D-FL16.1 Ig

0.709 0.246 AAMA AA795198 T-cell immunoglobulin and mucin domain containing 2 (Timd2) 0.709 0.246 AAMA AA986114 T-cell immunoglobulin and mucin domain containing 2

Table III: List of genes with expression restricted to B cells.

Table shows genes that were found to be expressed exclusively in B cells. Genes were considered as "Present" (P), "Absent" (A) or "Mixed" (M) with the same criteria as in Table I. The list includes only the genes that were found to have a B cell specific expression pattern (AAPA) with a probability higher than 0.7, following Present/Absent statistical analysis. For every gene, the second highest probability to have another expression pattern is indicated (Probability 2), as well as the corresponding pattern (Pattern 2). Abbreviations used: TF: Transcription Factor, MP:

Membrane Protein, ME: Metabolic Enzyme, Ig: Immunoglobulin Molecule.

pro-B cells pre-B cells B cells plasma cells

Absent Absent Absent Present

Proba Proba Pattern GeneBankTM Gene Protein

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34 Tsapogas et al.

bility bility 2 2 Accession No type

0.927 0.030 AAAM Y07686 NfiB3-protein, splice variant (exon 9, 10 and 11 missing) TF

0.927 0.030 AAAM Y07685 NfiB1-protein (exon 1-12) TF

0.927 0.030 AAAM U79550 Slug, chicken homolog TF

0.927 0.030 AAAM AF079535 3-phosphoinositide dependent protein kinase-1 STP

0.927 0.030 AAAM AI850288 similar to GTP-RHO binding protein 1 (RHOPHILIN) STP

0.927 0.030 AAAM AJ002306 synaptogyrin 1b MP

0.927 0.030 AAAM AF061505 B-cell maturation protein MP

0.927 0.030 AAAM AF029843 phosphoglycerate mutase muscle-specific subunit ME

0.927 0.030 AAAM AW124433 Similar to human adenosine deaminase, RNA-specific ME

0.927 0.030 AAAM AV345565 Similar to human adenosine deaminase, RNA-specific ME

0.927 0.030 AAAM AB030316 Pig-n gene for phosphatidylinositolglycan class N ME

0.772 0.168 MAAP AA408341 phospholipase A2, group V ME

0.927 0.030 AAAM U43541 Laminin, beta 2 ECM

0.927 0.030 AAAM AF054819 DNA Segment, Chr 6, human D12S2489E 0.927 0.030 AAAM AW122372 Similar to KIAA0721 protein

0.927 0.030 AAAM AI834849

0.927 0.030 AAAM AW047643

Table IV: List of genes present only in plasma cells.

Table shows genes that were found to be expressed exclusively in plasma cells. Genes were considered as "Present" (P), "Absent" (A) or "Mixed" (M) with the same criteria as in Table I. The list includes only the genes that were found to have a plasma cell specific expression pattern (AAAP) with a probability higher than 0.7, following Present/Absent statistical analysis. For every gene, the second highest probability to have another expression pattern is indicated (Probability 2), as well as the corresponding pattern (Pattern 2). Abbreviations used: TF: Transcription Factor, STP:

Signal Transduction Protein, MP: Membrane Protein, ME: Metabolic Enzyme, ECM:

Extracellular Matrix Molecule.

pro-B cells pre-B cells B cells plasma cells

Present Present Absent Absent

Proba bility

Proba bility 2

Pattern 2

GeneBankTM Accession No

Gene Protein

type

0.927 0.021 PMAA AF006492 friend of GATA-1 (FOG) TF

0.785 0.156 PPMA AB017132 Hex(prh) gene TF

0.785 0.156 PPMA D26532 Core binding factor alpha 2 TF

0.927 0.021 PMAA M80632 Guanine nucleotide binding protein, alpha 15 STP

0.785 0.156 PPMA AW124359 Similar to: partial Pik3cd gene for phosphatidylinositol 3-kinase p110 delta, exon 22

STP

0.927 0.021 PMAA AI841654 G protein-coupled receptor 56 (Gpr56) MP

0.785 0.156 PPMA AI850484 Rat putative potassium channel subunit protein (RCK3) MP

0.785 0.156 PPMA U18975 Ganglioside expression 2 MP

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0.785 0.156 PPMA X13986 minopontin SP

0.785 0.156 PPMA M16465 Calpactin I light chain CP

0.785 0.156 PPMA D88769 latexin CP

0.785 0.156 PPMA U87814 PEST phosphatase interacting protein CP

0.707 0.241 PMAA AA681862 spindlin (Spin) CP

0.785 0.156 PPMA X99805 Tectorin alpha ECM

0.785 0.156 PPMA AA921411

0.785 0.156 PPMA AA822174

0.785 0.156 PPMA AA833293

pro-B cells pre-B cells B cells plasma cells

Present Present Present Absent

Proba bility

Proba bility 2

Pattern 2

GeneBankTM Accession No

Gene Protein

type 0.917 0.023 PPMA AW121057 similar to: nuclear receptor co-repressor 2; silencing mediator of retinoid acid and

thyroid hormone receptor

TF

0.731 0.209 PPMA AF087434 transcription factor NF-ATc isoform a (NF-ATca) TF

0.917 0.023 PPMA X55663 Cytoplasmic tyrosine kinase, Dscr28C related (Drosophila) STP 0.917 0.023 PPMA AI852578 Similar to: Rat natural resistance-associated macrophage protein 2 (Nramp2) MP

0.917 0.023 PPMA U86405 brain amphiphysin 2 CP

0.917 0.023 PPMA U60884 SH3P9 CP

0.917 0.023 PPMA AV336639 talin (Tln) CP

0.917 0.023 PPMA AA623483 ribosomal protein L40 CP

0.731 0.209 PPMA Y15910 dia protein CP

0.731 0.209 PPMA AI840868 neural precursor cell expressed, developmentally down-regulated gene 4b (Nedd4b)

CP

0.917 0.023 PPMA AI835446 isocitrate dehydrogenase 3 (NAD+) alpha ME

0.917 0.023 PPMA U38967 Prothymosin beta 4 H

0.917 0.023 PPMA AW120727

0.917 0.023 PPMA AI152195

0.917 0.023 PPMA AW123599

0.917 0.023 PPMA AA222883

0.917 0.023 PPMA AW125453

0.731 0.209 PPMA AI851565

pro-B cells pre-B cells B cells plasma cells

Absent Present Present Present

Proba bility

Proba bility 2

Pattern 2

GeneBankTM Accession No

Gene Protein

type

0.910 0.029 APPM AF061972 Tat-interacting protein TIP30 TF

0.910 0.029 APPM Z54283 B-cell-specific coactivator BOB.1 TF

0.910 0.029 APPM L13171 Myocyte enhancer factor 2C TF

0.910 0.029 APPM AF068182 B cell linker protein BLNK STP

0.910 0.029 APPM AF068182 B cell linker protein BLNK STP

0.757 0.165 MPPP AW045474 Similar to: ADP-ribosylation-like 3 (Arl3) mRNA STP

0.757 0.165 MPPP AI835784 sphingosine-1-phosphate phosphatase1 STP

0.757 0.165 MPPP AW046747 cation-transporting atpase (catp) MP

0.726 0.207 APMP AF029347 chloride channel protein 3 (CLCN3) MP

0.757 0.165 MPPP L42115 insulin-activated amino acid transporter MP

0.910 0.029 APPM U57746 platelet-activating factor acetylhydrolase isoform Ib gamma subunit (PAF-AH gamma)

ME

0.910 0.029 APPM AF023463 peroxisomal phytanoyl-CoA alpha hydroxylase (PAHX) ME

0.910 0.029 APPM U96746 antioxidant enzyme AOE372 ME

0.910 0.029 APPM U42443 MECA39 mRNA ME

0.910 0.029 APPM D29639 embryonal carcinoma cell mRNA for 3-hydroxyacyl CoA dehydrogenase ME

0.910 0.029 APPM M19436 Myosin light chain, alkali, cardiac atria CP

0.910 0.029 APPM Z46966 imogen 44 MtP

0.910 0.029 APPM AW125480 similar to 16.7Kd protein

0.910 0.029 APPM AW120567 homolog to sorting Nexin 9 (SH3 and PX domain-containing protein 1) (SDP1 protein)

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0.726 0.207 APMP AI153421 Similar to: erythroid differentiation regulator

0.910 0.029 APPM AW050059

0.910 0.029 APPM AI426400

0.910 0.029 APPM AA597220

0.910 0.029 APPM AA473729

pro-B cells pre-B cells B cells plasma cells

Absent Present Present Absent

Proba bility

Proba bility 2

Pattern 2

GeneBankTM Accession No

Gene Protein

type

0.924 0.024 APMA M32489 Interferon concensus sequence binding protein TF

0.924 0.024 APMA X53532 Protein kinase C, beta STP

0.924 0.024 APMA X59274 brain protein kinase C beta-I STP

0.924 0.024 APMA M28240 CD19 antigen MP

0.924 0.024 APMA AI153959 sialyltransferase 10 (alpha-2,3 sialyltransferaseVI) ME

0.769 0.167 MPPA AI606951 similar to hypothetical protein DKFZp434A1319

0.737 0.210 APMA AI838274 solute carrier family 29 (nucleoside transporters), member 1

0.924 0.024 APMA AI850090

Table V: Lists of genes with continuous expression patterns.

Table shows genes that were found to be expressed in more than one B cell developmental stages. Genes were considered as "Present" (P), "Absent" (A) or

"Mixed" (M) with the same criteria as in Table I. The lists include only the genes that were found to have specific expression patterns with a probability higher than 0.7, following Present/Absent statistical analysis. For every gene, the second highest probability to have another expression pattern is indicated (Probability 2), as well as the corresponding pattern (Pattern 2). Abbreviations used: TF: Transcription Factor, STP: Signal Transduction Protein, MP: Membrane Protein, ME: Metabolic Enzyme, CP: Cytoplasmic Protein, SP: Secreted Protein, ECM: Extracellular Matrix Molecule, H: Hormone, MtP: Mitochondrial Protein.

pro-B cells pre-B cells B cells plasma cells

Absent Present Absent Present

Proba bility

Proba bility 2

Pattern 2

GeneBankTM Accession No

Gene Protein

type

0.920 0.029 APAM U05252 nuclear matrix attachment DNA-binding protein SATB1 TF

0.920 0.029 APAM U20949 lymphoid-specific interferon regulatory factor (LSIRF) TF

0.779 0.155 APMP J02980 Alkaline phosphatase 2 ME

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Tsapogas et al.

pro-B cells pre-B cells B cells plasma cells

Present Absent Absent Present

Proba bility

Proba bility 2

Pattern 2

GeneBankTM Accession No

Gene Protein

type

0.921 0.029 PAAM AF020200 transcription factor PBX3b (PBX3b) TF

0.921 0.029 PAAM D86563 RAB4A, member RAS oncogene family STP

0.921 0.029 PAAM AI840130 Src activating and signaling molecule (Srcasm) STP

0.921 0.029 PAAM X66084 CD44 antigen MP

0.921 0.029 PAAM AF056187 insulin-like growth factor I receptor MP

0.921 0.029 PAAM X15788 postsynaptic 43kD protein MP

0.921 0.029 PAAM U15635 IFN-gamma induced (Mg11) mRNA CP

0.921 0.029 PAAM AA981725 homolog to heterogeneous nuclear ribonucleoprotein L (hnRNP L) CP

pro-B cells pre-B cells B cells plasma cells

Present Present Absent Present

Proba bility

Proba bility 2

Pattern 2

GeneBankTM Accession No

Gene Protein

type 0.773 0.153 PPMP AA710439 Human BTB and CNC homology 1, basic leucine zipper transcription factor 1

(BACH1)

TF

0.773 0.153 PPMP AB024005 KRAB-containing zinc-finger protein KRAZ2, mRNA TF

0.773 0.153 PPMP Z11664 Son of sevenless homolog 2, (Drosophila) STP

0.773 0.153 PPMP J05261 Protective protein for beta galactosidase ME

0.773 0.153 PPMP AI021421 ubiquitin specific protease 3 (USP3) CP

0.773 0.153 PPMP AI851218 Similar to centrosome-associated protein 350 CP

0.773 0.153 PPMP AI120844 cytohesin binding protein (Cbp) CP

0.773 0.153 PPMP X60672 radixin mRNA CP

0.773 0.153 PPMP AI851598 autophagy 12-like (S. cerevisiae) CP

0.773 0.153 PPMP AW122935 NCU-G1 mRNA for kidney predominant protein 0.773 0.153 PPMP AI850509 similar to envelope protein (4632419I22Rik)

0.773 0.153 PPMP AI852704

0.773 0.153 PPMP AA266467

0.773 0.153 PPMP AW122973

0.773 0.153 PPMP AI838630

0.773 0.153 PPMP AI851614

pro-B cells pre-B cells B cells plasma cells

Present Absent Present Absent

Proba bility

Proba bility 2

Pattern 2

GeneBankTM Accession No

Gene Protein

type

0.703 0.244 PAMA U05837 Hexosaminidase A ME

Table VI: Lists of genes with discontinuous expression patterns.

Table shows genes that found to be expressed in more than one B cell developmental

stages. Genes were considered as "Present" (P), "Absent" (A) or "Mixed" (M) with the

same criteria as in Table I. The lists include only the genes that were found to have

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Tsapogas et al.

specific expression patterns with a probability higher than 0.7, following Present/Absent

statistical analysis. For every gene, the second highest probability to have another

expression pattern is indicated (Probability 2), as well as the corresponding pattern

(Pattern 2). Abbreviations used: TF: Transcription Factor, STP: Signal Transduction

Protein, MP: Membrane Protein, ME: Metabolic Enzyme, CP: Cytoplasmic Protein.

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39 Tsapogas et al.

expression pattern

TF STP MP ME SP CP Ig total

PAAA 9 8 9 6 6 3 - 47

APAA 5 4 4 1 - 3 17 35

AAPA 3 - 2 1 - - 1 9

AAAP 3 2 2 5 1 - - 17

PPAA 3 2 3 - 2 4 - 17

PPPA 2 1 1 1 1 6 - 18

APPP 3 4 3 5 1 1 - 24

APPA 1 2 1 1 - - - 8

APAP 2 - - 1 - - - 3

PAAP 1 2 3 - - 2 - 8

PPAP 2 1 - 1 - 5 - 16

PAPA - - - 1 - - - 1

34 26 28 23 11 24 18 203

Table VII: Summary of Probabilistic state analysis allows for the identification of 203 genes with stage restricted expression. Table II shows a summary of the genes calculated to display stage restricted expression patterns based on P/A based probabilistic state analysis (Bilke et al. Submited). PAAA indicates pro-B cell, APAA pre-B, AAPA B and AAAP plasma cell restricted genes. Genes with expression at several stages and indicated in accordance with the same patterns. The lists include only the genes that were found to have specific expression patterns with a probability higher than 0.7, following Present/Absent statistical analysis. Abbreviations used: TF: Transcription Factor, STP:

Signal Transduction Protein, MP: Membrane Protein, ME: Metabolic Enzyme, SP:

Secreted Protein, CP: Cytoplasmic Protein, Ig: Immunoglobulin.

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40 Tsapogas et al.

References

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