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8 a SSC singlets YFP pos P2+P3 Sca1-Ax Sca1 pos YFP pos YFP CD34-Ax P3 P Alpha6-PE CD34-Ax CD200-PECy7 Bulge HG b UP DOWN Bulge HG Bulge HG c Relative expression Axin2 ** * * * ** ** ** Chd3 Whrn Acsbg1 Adamtsl4 Cyp4b1 Gfra1 Myoc Control bulge cko bulge * * * Nt5e Steap4 Tns1 d Relative expression Axin2 * * ** ** ** * Chd3 Whrn Acsbg1 Adamtsl4 Cyp4b1 ** Control HG cko HG Gfra1 Myoc Nt5e ** * * Steap4 Tns1 Supplementary Figure 8 Isolation of bulge and HG HFSCs from Nfib het and cko skins for RNA-seq and qpcr analysis. a, FACS isolation. Bulge HFSCs were isolated with markers YFP + Sca1-6 high CD34 + CD200 + ; HG HFSCs with the same markers but CD34 -. b, Venn diagrams representing gene expression changes in cko bulge/hg cells compared to control by RNA-seq analysis ( 2-fold). c, qpcr confirms the results from RNA-seq analysis. *P < **P < Error bars indicate s.e.m. 8

9 1 2 0 doi: /nature11847 Enrichment Rest RefSeq genes Bulge Up genes HG Up genes Bulge Down genes HG Down genes Enrichment 5-5 Depletion Depletion 3 4 Chromatin modification, GO: Fat-soluble vitamin metabolic process, GO: Negative regulation of alpha-beta T cell activation, GO: Regulation of organ growth, GO: Homeostasis of number of cells within a tissue, GO: Positive regulation of B cell proliferation, GO: Positive regulation of B cell activation, GO: Positive regulation of organ growth, GO: Regulation of inhibitory postsynaptic membrane potential, GO: Membrane hyperpolarization, GO: Eating behavior, GO: Wnt receptor signaling pathway, GO: Negative regulation of Wnt receptor signaling pathway through beta-ca Cochlea development, GO: Outer ear morphogenesis, GO: Positive regulation of developmental process, GO: Wnt receptor signaling pathway, calcium modulating pathway, GO: Positive regulation of pigment cell differentiation, GO: Positive regulation of melanocyte differentiation, GO: Mammary duct terminal end bud growth, GO: Positive regulation of developmental pigmentation, GO: Regulation of peptidyl-serine phosphorylation, GO: Regulation of pigment cell differentiation, GO: Regulation of melanocyte differentiation, GO: Mammary gland duct morphogenesis, GO: Wnt receptor signaling pathway, planar cell polarity pathway, GO:0060 Cochlea morphogenesis, GO: Nucleobase, nucleoside and nucleotide catabolic process, GO: Nucleobase, nucleoside, nucleotide and nucleic acid catabolic process Cellular nitrogen compound catabolic process, GO: Digestion, GO: Nucleoside metabolic process, GO: Positive regulation of synaptic transmission, GABAergic, GO: Regulation of synaptic transmission, GO: Regulation of transmission of nerve impulse, GO: Regulation of neurological system process, GO: Ribonucleoside metabolic process, GO: Negative regulation of defense response, GO: Regulation of cell-substrate adhesion, GO: Positive regulation of cell-substrate adhesion, GO: Positive regulation of transcription factor import into nucleus, GO:0 Positive regulation of NF-kappaB import into nucleus, GO: Cell cycle phase, GO: Cell cycle, GO: Regulation of cell cycle, GO: Cell cycle process, GO: Mitosis, GO: Nuclear division, GO: M phase of mitotic cell cycle, GO: Organelle fission, GO: Chromosome segregation, GO: Mitotic cell cycle, GO: Regulation of microtubule-based process, GO: Leukocyte chemotaxis, GO: Cell chemotaxis, GO: Regulation of interleukin-12 production, GO: Icosanoid metabolic process, GO: Unsaturated fatty acid metabolic process, GO: Regulation of establishment of blood-brain barrier, GO: Hair follicle morphogenesis, GO: Epidermis morphogenesis, GO: Extracellular structure organization, GO: Regulation of cartilage development, GO: Activation of Ras GTPase activity, GO: Activation of Rho GTPase activity, GO: Arginine transport, GO: Regulation of germinal center formation, GO: Regulation of synaptic transmission, GABAergic, GO: Positive regulation of neuron differentiation, GO: Establishment of apical/basal cell polarity, GO: Prostanoid metabolic process, GO: Prostaglandin metabolic process, GO: Pyrimidine ribonucleoside metabolic process, GO: Purine nucleoside monophosphate catabolic process, GO: Purine ribonucleoside monophosphate catabolic process, GO: Activation of phospholipase C activity by muscarinic acetylcholine re Adenosine biosynthetic process, GO: Positive regulation of Rac GTPase activity, GO: AMP catabolic process, GO: Vitamin E metabolic process, GO: Ribonucleoside monophosphate catabolic process, GO: Pyrimidine base catabolic process, GO: Gastric acid secretion, GO: Lysine transport, GO: Negative regulation of establishment of blood-brain barrier, GO:00902 Nucleobase catabolic process, GO: Uridine metabolic process, GO: Activation of Rac GTPase activity, GO: Ornithine transport, GO: Regulation of neuron differentiation, GO: Oxygen transport, GO: Midgut development, GO: Leukocyte migration, GO: M phase, GO: Gas transport, GO:

10 Supplementary Figure 9 Pathway analysis. The heatmap shows the enriched biological processes (Gene Ontology) for the up- or down-regulated genes in Nfib cko bulge and HG HFSCs relative to control in RNA-seq results, compared to the rest of the known genes in RefSeq annotation database. The categories indicate genes over/under expressed in cko bulge (Bulge Up/Bulge Down), and over/under expressed in HG HFSCs (HG Up/HG Down). Note: for this analysis, we excluded the small subset of pigment mrnas, which might appear to arise from ectopic melanosome uptake by HFSCs nearest the DP. 10

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12 a Replicate1 Replicate2 Krt5 1 kb b d 22% 29% 12% 2% 2% 33% Promoters (±2kB) Downstream (±2kB) Exons Introns Gene proximal (2-50kB) Gene distal (>50kB) Motif Sequence Occurrence (%) Z-score c e Frequency (%) Promoters (±2kB) Observed Predicted P < Downstream (±2kB) P < Exons Introns P < Gene distal (>50kB) Gene proximal (2-50kB) Reported binding sequence of NFI: TTGGC-(N)5-GCCAA CTGCCAG 1190/2256=53% CTGGCAC 1140/2256=50% st half CTGGCAC motif CTGGCTC motif AGCCAAG 1091/2256=48% CTGGCTC 1057/2256=47% nd half CTGCCAG motif AGCCAA G motif TTGCCAA 792/2256=35% TTGCCAA motif Supplementary Figure 11 Genomic distribution of NFIB ChIP-seq peaks and motif analysis. a, Visualization of NFIB ChIP-seq profiles of Krt5 promoter. b, Genomic distribution of NFIB ChIP-seq peaks relative to RefSeq transcripts. Promoter: within 2kB of transcription start site. Downstream: within 2kB of transcription end site. Gene proximal: within upstream 2-50kB of transcription start site. Gene distal: beyond upstream 50kB of transcription start site. c, Comparison of the observed NFIB bound peak distribution to the predicted distribution based on the genomic representation of each compartment, using the Binomial test. d, The motifs discovered from de novo motifs analysis using FIRE program are shown. The percentage of NFIB bound peaks occurrences and the corresponding z-scores are indicated for each motif. e, The discovered motifs are grouped based on their similarity to reported first and second halves of the NFIB palindromic motif. 12

13 UP Bulge Hair germ Unique in Bulge Common between Bulge and Hair Germ Unique in Hair Germ NFIB target genes Bulge DOWN Hair germ O10Rik I09Rik Apcdd1 Armc2 C1rl Camk1g Cd44 Cyp2b19 Gm1564 Igf2 Igfbp3 Il17rb P Kcnk10 Mlf1ip P Mpdz Mxd3 P Ngf Ntm Osgin1 Pax3 Prkca Rimkla Shox2 Slc7a1 Sulf2 Tacc3 Tk1 P Tmem176a P Trpm C20Rik P C15Rik Cdk18 Chd3 Dct P Edn2 P Eya1 Fhod3 G530011O06Rik P Iyd Krt8 Lzts1 Ncam1 Pitpnc1 Whrn G03Rik I06Rik Ampd3 Ccdc68 Cd69 Cdk15 Cps1 Cxcl14 Dlgap1 Enox1 Fmo2 Foxe1 Gli2 Haao Id2 Inhbb Kif21b Kif26a Kirrel Krtap11-1 P Lgr5 Mdga1 Mme Ndrg1 P Odz3 Per2 P Plcl1 Plekhg1 Ppp1r3b Psd3 Ptprn2 Ror2 S100a3 P Samd12 Sdk2 Sfrp1 Slc38a2 Slc6a6 Sorbs2 Sparc Stfa3 Tnc P Indicates genes with NFIB bound peak in promoter A04Rik E13Rik P I19Rik C18Rik G18Rik Aknad1 Arhgap26 Arvcf Bnc1 Chst13 Cmtm8 Cnih3 Crip2 Ctgf Cyr61 P Dll1 Ednra Emilin3 P Ephx2 Etv4 P Fam13a Fbxo16 Fcgbp P Gatsl3 Gm826 Hivep3 Igfbp5 Il22ra1 Ism1 Itih5 Kcnk2 Maf Mfge8 P Mfsd9 P Nrg2 Nrtn P Nuak1 P2ry1 P Pik3r1 Pld1 Plekha2 Ppap2b Ppp1r3c Prickle2 Prkcq Rapgef4 Rnase10 Rrm2 Sardh Sesn1 Sh3rf2 Slc27a3 Slc43a1 P Slc6a2 Spink2 Spock K01Rik Acsbg1 Adamtsl4 BB BC Bmp6 Cacna2d2 Cyp4b1 Gfra1 Grik1 Il17b Myoc Nt5e Plekhf1 P Pvt1 Slc16a14 Steap4 Tns1 Spsb4 Thbs1 Thbs2 Thnsl2 Tle2 Tmem28 Trpv4 Vgll G23 Rik Aldh3a1 Ank BC Btg3 P Chit1 Crabp2 Cyp2b10 D0H4S114 Dab2 Enpp6 Foxq1 Fzd7 Gm14047 Gpr111 Irx3 Itpripl1 Krt32 Lgals2 P Npy Nxph1 Paqr7 Psapl1 P Ptn P Rell1 Slc22a3 Slc46a3 P Steap1 Tead4 Tec Tmem45a Tmprss2 Vsnl1 Supplementary Figure 12 Identification of direct NFIB target genes in HFSCs whose expression is regulated by NFIB. The Venn diagram on the le shows the comparison between 1449 NFIB direct target genes om ChIP-seq analysis and genes up or down-regulated in Nfib cko bulge/hg HFSCs om RNA-seq. Genes that are bound by and regulated by NFIB are listed. Unique in Bulge or HG means their expression levels are only changed in each population. Common between Bulge and HG indicates genes that are changed in both populations. Genes with NFIB bound peak in their promoter ( 2kb om TSS), and with both halves o NFIB palindromic moti are explicitly marked. 13

14 Relative expression P = Edn2 Gpnmb Kitl Het + EGFP KO + EGFP KO + EGFP-Nfib3 Supplementary Figure 13 Regulation of Edn2 expression by NFIB in vitro. qpcr from Nfib het or KO keratinocyte cultures transfected with EGFP or EGFP-Nfib3 transgenes. Values are normalized to het+egfp. Error bars indicate s.e.m. 14

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16 a H2BmRFP1 KIT EGFP HG Bu b Edn2 relative expression P = No color GFP+ RFP+ Double+ Supplementary Figure 15 Edn2 induction in skin epithelial cells but not melanocytes by in utero lentiviral injection. a, Immunofluorescence with KIT and GFP antibodies. As judged by H2BmRFP1/GFP expression, transduction is confined to skin epithelial cells and not seen in KIT + McSCs. b, Upregulation of Edn2 in doubly transduced cells examined by qpcr on FACS-isolated populations after 10 or 30 days of feeding on Doxcycline-containing chow (n=3). Values are normalized to no-color control. Bu: bulge. HG: hair germ. Scale bars: 10 μm. Error bars indicate s.e.m. 16

17 Supplementary Table 1 Gene list from RNA-seq analysis for bulge/hg HFSCs from Nfib cko and het skins. Fold change is estimated as log 2 ratio between cko and WT in Bulge- and HG-HFSCs. Bulge Up GENE Description WT Bulge KO Bulge WT HG KO HG Log2 KO Bulge/WT Bulge Log2 KO HG/WT HG Mir23b Snord Snord Mir Mir Snord Slc15a2 solute carrier family 15 member 2 isoform Mir Mir Snora Snora Snord Snora Mir Snora Snora7a Snora H Ccl20 C-C motif chemokine 20 isoform Snora Ugt1a10 UDP glycosyltransferase 1 family, polypeptide Rmrp Insl3 insulin-like 3 precursor Mir Prr9 proline-rich protein Itga8 integrin alpha-8 precursor Hist2h2bb histone H2B type 2-B Atp12a potassium-transporting ATPase alpha chain Gap43 neuromodulin Kcnn3 small conductance calcium-activated potassium Kcnip2 Kv channel-interacting protein 2 isoform b Slc18a3 vesicular acetylcholine transporter C2cd4b family with sequence similarity 148, member B Hba-a2 hemoglobin alpha, adult chain Car2 carbonic anhydrase Sphkap A-kinase anchor protein SPHKAP Fam71a hypothetical protein LOC Crygn gamma-crystallin N Rpph Hmga2 high mobility group protein HMGI-C Mpp4 MAGUK p55 subfamily member 4 isoform Ptgds prostaglandin-h2 D-isomerase Chst9 carbohydrate sulfotransferase C2 complement C2 precursor Nts neurotensin/neuromedin N Nppc C-type natriuretic peptide preproprotein Pcp4 Purkinje cell protein Glrb glycine receptor subunit beta precursor Hbb-b2 hemoglobin subunit beta Plekha6 pleckstrin homology domain-containing family A Sync syncoilin Sprr1b cornifin-b Nuf2 kinetochore protein Nuf Wnt16 protein Wnt-16 precursor Gpihbp1 glycosylphosphatidylinositol-anchored high Klk14 kallikrein-14 preproprotein Cpa6 carboxypeptidase A6 precursor As3mt arsenite methyltransferase Asphd2 aspartate beta-hydroxylase domain-containing Pcdh20 protocadherin-20 precursor Lst1 leukocyte-specific transcript 1 protein Nxf7 nuclear RNA export factor 7 isoform H03Rik Tas1r2 taste receptor type 1 member 2 precursor Serpinb6e serine (or cysteine) peptidase inhibitor, clade Birc5 baculoviral IAP repeat-containing protein Ifitm5 interferon-induced transmembrane protein Fhod3 FH1/FH2 domain-containing protein Hmmr hyaluronan mediated motility receptor Kcnq3 potassium voltage-gated channel subfamily KQT Ccnb2 G2/mitotic-specific cyclin-b Kirrel3 kin of IRRE-like protein 3 isoform D precursor Cdk1 cyclin-dependent kinase Shcbp1 SHC SH2 domain-binding protein Ntm neurotrimin precursor Ephb1 ephrin type-b receptor 1 isoform Icam2 intercellular adhesion molecule 2 precursor Pthlh parathyroid hormone-related protein Klrd1 natural killer cells antigen CD Nlgn1 neuroligin-1 isoform Anxa9 annexin A Iqgap3 IQ motif containing GTPase activating protein Mki67 antigen KI Tpx2 TPX2, microtubule-associated protein homolog Pdgfc platelet-derived growth factor C Fmod fibromodulin precursor C1qtnf5 complement C1q tumor necrosis factor-related

18 Adamtsl1 ADAMTS-like protein Lmo3 LIM domain only protein A07Rik Cenpf centromere protein F Mlana melanoma antigen recognized by T-cells Top2a DNA topoisomerase 2-alpha Pbk lymphokine-activated killer T-cell-originated Pitpnm3 membrane-associated phosphatidylinositol A330040F15Rik Kif22 kinesin-like protein KIF D4Bwg0951e hypothetical protein LOC Lce6a late cornified envelope 6A Nme3 nucleoside diphosphate kinase F15Rik B930003M22Rik Timp3 metalloproteinase inhibitor 3 precursor Bub1 mitotic checkpoint serine/threonine-protein Nek2 serine/threonine-protein kinase Nek Gpnmb transmembrane glycoprotein NMB precursor Rpl39l ribosomal protein L39-like protein Loxl2 lysyl oxidase homolog 2 precursor Lmcd1 LIM and cysteine-rich domains protein Ifi27l2a interferon, alpha-inducible protein 27 like 2A Gm St3gal5 lactosylceramide alpha-2,3-sialyltransferase Wfdc2 WAP four-disulfide core domain protein Ube2c ubiquitin-conjugating enzyme E2 C Ttr transthyretin Ltc4s leukotriene C4 synthase Fxyd4 FXYD domain-containing ion transport regulator E130306D19Rik vav-like protein C9orf100 homolog Prc1 protein regulator of cytokinesis Fam64a family with sequence similarity 64, member A Tmem95 transmembrane protein Slc16a1 monocarboxylate transporter Eya1 eyes absent homolog Slc20a1 sodium-dependent phosphate transporter 1 isoform Adcy7 adenylate cyclase type Neil3 endonuclease 8-like Kif20a kinesin-like protein KIF20A Depdc1a DEP domain-containing protein 1A isoform Itga1 integrin alpha-1 precursor Ccna2 cyclin-a Col4a4 collagen alpha-4(iv) chain precursor Kif23 kinesin family member Vit vitrin isoform Bst1 ADP-ribosyl cyclase Spc24 kinetochore protein Spc Fam84a family with sequence similarity 84, member A Fgf21 fibroblast growth factor 21 precursor Anln actin-binding protein anillin Ckap2 cytoskeleton-associated protein Aurkb serine/threonine-protein kinase Kcnmb4 calcium-activated potassium channel subunit Nusap1 nucleolar and spindle-associated protein Pglyrp1 peptidoglycan recognition protein 1 precursor Wnt6 protein Wnt-6 precursor Tyrp1 5,6-dihydroxyindole-2-carboxylic acid oxidase Il17rb interleukin-17 receptor B precursor Amtn amelotin precursor Cdca5 sororin C1s complement C1s-A subcomponent S100a9 protein S100-A C15Rik Dlgap5 disks large-associated protein 5 isoform BC H13Rik PCNA-associated factor Spag5 sperm-associated antigen AI Melk maternal embryonic leucine zipper kinase Rbpjl recombining binding protein suppressor of Wif1 wnt inhibitory factor 1 precursor Xlr3b X-linked lymphocyte-regulated protein 3B Batf3 basic leucine zipper transcriptional factor I11Rik Kifc1 kinesin-like protein KIFC Gja1 gap junction alpha-1 protein Cdc25c M-phase inducer phosphatase Racgap1 rac GTPase-activating protein Tubb6 tubulin beta-6 chain Spc25 kinetochore protein Spc25 isoform Thy1 thy-1 membrane glycoprotein preproprotein Kif11 kinesin-like protein KIF Cep55 centrosomal protein of 55 kda isoform Scrg1 scrapie-responsive protein 1 precursor Ccnb1 G2/mitotic-specific cyclin-b Edn2 endothelin-2 precursor Foxm1 forkhead box protein M F630043A04Rik spindle and kinetochore-associated protein Agrp agouti-related protein precursor Casc5 protein CASC Crct1 cysteine-rich C-terminal

19 Gm5506 hypothetical protein LOC Gm Bhlhe40 class E basic helix-loop-helix protein Cnksr2 connector enhancer of kinase suppressor of ras Cks2 cyclin-dependent kinases regulatory subunit Cdca3 cell division cycle-associated protein Hist3h2ba histone H2B type 3-A Diap3 protein diaphanous homolog Cdc20 cell division cycle protein 20 homolog Akr1cl aldo-keto reductase family 1, member C-like Gm Kntc1 kinetochore-associated protein Abcc8 ATP-binding cassette, sub-family C (CFTR/MRP), Calml4 calmodulin-like protein 4 isoform b Tspan12 tetraspanin Tnfsf13 tumor necrosis factor ligand superfamily member Kif4 chromosome-associated kinesin KIF Mis18bp1 mis18-binding protein Ccnb1ip1 E3 ubiquitin-protein ligase CCNB1IP D630032N06Rik Klk6 kallikrein related-peptidase 6 precursor Asf1b histone chaperone ASF1B Gpr64 G-protein coupled receptor 64 isoform Gm Airn Gm13124 hypothetical protein LOC Vpreb2 immunoglobulin omega chain precursor Pkp2 plakophilin Cdca8 borealin Serpinb11 serpin B Aspm abnormal spindle-like microcephaly-associated Tgif2 homeobox protein TGIF Bub1b mitotic checkpoint serine/threonine-protein Ngb neuroglobin Hs6st2 heparan-sulfate 6-O-sulfotransferase 2 isoform Mest mesoderm-specific transcript protein Cdca2 cell division cycle-associated protein Rpl26 60S ribosomal protein L Rbp7 retinoid-binding protein C13Rik M22Rik Adamts20 A disintegrin and metalloproteinase with Cenpe centromere-associated protein E Esco2 N-acetyltransferase ESCO Cd36 platelet glycoprotein Gm O06Rik Gfra3 GDNF family receptor alpha-3 preproprotein Gm889 hypothetical protein LOC Kif2c kinesin-like protein KIF2C Synpo2 synaptopodin Gm106 RPE-spondin precursor Sprr2d small proline-rich protein 2D Kif15 kinesin-like protein KIF Kif20b kinesin-like protein KIF20B Gm Gm5077 complement C1s-B subcomponent precursor Snhg11 small nucleolar RNA host gene 11 (non-protein Matn4 matrilin-4 precursor Lonrf3 LON peptidase N-terminal domain and RING finger Arhgap11a rho GTPase-activating protein 11A Iyd iodotyrosine dehalogenase 1 precursor Ly6g5b lymphocyte antigen 6 complex locus protein G5b Nhedc2 mitochondrial sodium/hydrogen exchanger NHA Fabp4 fatty acid-binding protein, adipocyte Gm1564 hypothetical protein LOC Fanca Fanconi anemia group A protein homolog Lzts1 leucine zipper putative tumor suppressor Col4a3 collagen alpha-3(iv) chain precursor Ly6k lymphocyte antigen 6K precursor Lrrc23 leucine-rich repeat-containing protein Cxcl3 C-X-C motif chemokine 3 precursor Slc1a3 excitatory amino acid transporter Gpx2-ps Hoxc12 homeobox protein Hox-C Mir17hg Bgn biglycan precursor Plk1 serine/threonine-protein kinase PLK Mxd3 max dimerization protein Galnt14 polypeptide N-acetylgalactosaminyltransferase Tnni2 troponin I, fast skeletal muscle Dact1 dapper homolog 1 isoform Sgol1 shugoshin-like Cry1 cryptochrome Ect2 protein ECT2 isoform Gm Car9 carbonic anhydrase 9 precursor Frat2 GSK-3-binding protein FRAT Eid3 EP300-interacting inhibitor of differentiation Clspn claspin Dct L-dopachrome tautomerase precursor Tacc3 transforming acidic coiled-coil-containing

20 Klhl34 kelch-like protein O15Rik Ebi3 interleukin-27 subunit beta precursor Rem1 GTP-binding protein REM Cdk18 cyclin-dependent kinase Stmn1 stathmin Tsc22d1 TSC22 domain family protein 1 isoform Zfp618 zinc finger protein Pitpnc1 cytoplasmic phosphatidylinositol transfer Dnajb13 dnaj homolog subfamily B member Ear2 eosinophil cationic protein 2 precursor Xlr3c X-linked lymphocyte-regulated protein 3C Tmem88b transmembrane protein 88B Reep1 receptor expression-enhancing protein Cenpi centromere protein I Tmem37 voltage-dependent calcium channel gamma-like Kif18b kinesin-like protein KIF18B Bves blood vessel epicardial substance C1rl complement C1r subcomponent-like protein Fgf13 fibroblast growth factor Hlf hepatic leukemia factor Wnt11 protein Wnt-11 precursor Beta-s hemoglobin subunit beta-1-like Malat Troap tastin Kif14 kinesin-like protein KIF Rgag1 retrotransposon gag domain-containing protein Zglp1 GATA-type zinc finger protein D630041G03Rik Ptprcap protein tyrosine phosphatase receptor type Tmem176a transmembrane protein 176A Gngt2 guanine nucleotide-binding protein Prex2 phosphatidylinositol Pmel melanocyte protein PMEL precursor Ncapg non-smc condensin I complex, subunit G Gpx2 glutathione peroxidase Ncam1 neural cell adhesion molecule 1 isoform Krt8 keratin, type II cytoskeletal Slc17a9 solute carrier family 17 member Ska1 spindle and kinetochore-associated protein Uhrf1 E3 ubiquitin-protein ligase UHRF1 isoform B Thsd4 thrombospondin type-1 domain-containing protein Gzmm granzyme M AI hypothetical protein LOC isoform Tnmd tenomodulin Tk1 thymidine kinase, cytosolic Morn3 MORN repeat-containing protein Ndc80 kinetochore protein NDC80 homolog Gpx3 glutathione peroxidase 3 isoform Gnal guanine nucleotide-binding protein G(olf) Pi15 peptidase inhibitor E330013P04Rik Htr2b 5-hydroxytryptamine receptor 2B Ecscr endothelial cell-specific chemotaxis regulator Dtl denticleless protein homolog Olr1 oxidized low-density lipoprotein receptor Gm K19Rik hypothetical protein LOC Kpna2 importin subunit alpha Apcdd1 protein APCDD1 precursor Chi3l1 chitinase-3-like protein Gch1 GTP cyclohydrolase 1 precursor Gpr27 probable G-protein coupled receptor Ltb lymphotoxin-beta Sgol2 shugoshin-like 2 isoform Mpdz multiple PDZ domain protein L04Rik hypothetical protein LOC isoform Shox2 short stature homeobox protein Zdhhc12 probable palmitoyltransferase ZDHHC12 isoform b Tgm3 protein-glutamine gamma-glutamyltransferase E Fstl1 follistatin-related protein 1 precursor Col12a1 collagen alpha-1(xii) chain Slc12a1 solute carrier family 12 member 1 isoform F Btnl9 butyrophilin-like protein Cpa2 carboxypeptidase A2 precursor Lrrc46 leucine-rich repeat-containing protein Ripply3 protein ripply Camk1g calcium/calmodulin-dependent protein kinase type Aox1 aldehyde oxidase Tmem173 transmembrane protein Ankle1 ankyrin repeat and LEM domain containing L02Rik hypothetical protein LOC Fam178b hypothetical protein LOC isoform A Krt35 keratin, type I cuticular Ha Orm3 alpha-1-acid glycoprotein 3 precursor Tmem180 transmembrane protein Nnat neuronatin isoform beta Stil SCL-interrupting locus protein homolog Syt4 synaptotagmin Ngf beta-nerve growth factor isoform A Hsd17b2 estradiol 17-beta-dehydrogenase Chst15 carbohydrate sulfotransferase

21 Apitd1 centromere protein S C13Rik Rep15 rab15 effector protein Gmnn geminin AI nesprin Cldn11 claudin Gm E2f8 transcription factor E2F C8g complement component C8 gamma chain precursor Trpm1 transient receptor potential cation channel Slfn10-ps schlafen Acsm3 acyl-coenzyme A synthetase ACSM3, mitochondrial Gm436 hypothetical protein LOC Hsf3 heat shock factor protein Cnih2 protein cornichon homolog Ccdc3 coiled-coil domain-containing protein Wnt5a protein Wnt-5a precursor Osgin1 oxidative stress-induced growth inhibitor Nrp neural regeneration protein Slc25a2 mutant ornithine transporter Atp8b5 probable phospholipid-transporting ATPase FetA Nsl1 kinetochore-associated protein NSL1 homolog Sit1 signaling threshold-regulating transmembrane Tsc22d2 TSC22 domain family protein Pdpn podoplanin precursor Cdkn3 cyclin-dependent kinase inhibitor Brca1 breast cancer type 1 susceptibility protein Lag3 lymphocyte activation gene 3 protein precursor Tm4sf1 transmembrane 4 L6 family member N16Rik PARP1-binding protein Rpp25 ribonuclease P protein subunit p Mcm10 protein MCM10 homolog Spon1 spondin-1 precursor D2Ertd750e putative TRAF4-associated factor Smc2 structural maintenance of chromosomes protein Gimap4 GTPase IMAP family member 4 isoform b C18Rik Kifc5b kinesin family member C5B Trh prothyroliberin Fam47e hypothetical protein LOC isoform Gm438 hypothetical protein LOC Mir27a Prelp prolargin precursor Slfn9 schlafen Igfbp3 insulin-like growth factor-binding protein K21Rik EF-hand calcium-binding domain-containing Gm885 allergin-1 precursor Cldn19 claudin-19 isoform Epha4 ephrin type-a receptor 4 precursor Rprm protein reprimo Tac4 tachykinin-4 precursor Rrad GTP-binding protein RAD Fam70a family with sequence similarity 70, member A Slc7a1 high affinity cationic amino acid transporter Lgals3 galectin Slc25a18 mitochondrial glutamate carrier Dusp18 dual specificity protein phosphatase Dgat2l6 diacylglycerol O-acyltransferase 2-like protein Cyp2b19 cytochrome P450 2B Prkca protein kinase C alpha type Chd3 chromodomain helicase DNA binding protein C11Rik hypothetical protein LOC G530011O06Rik Ces4a carboxylesterase 4A Gsdma3 gasdermin-a Ncf4 neutrophil cytosol factor F730043M19Rik Kir3dl1 killer cell immunoglobulin-like receptor 3DL E24Rik protein C9orf140 homolog Peg10 retrotransposon-derived protein PEG10 isoform Lrr1 peptidylprolyl isomerase-like O10Rik thyroid cancer Fam113b hypothetical protein LOC B01Rik Krt85 keratin, type II cuticular Hb Ybx2 Y-box-binding protein Cnn1 calponin Rad51ap1 RAD51-associated protein Gpr18 N-arachidonyl glycine receptor Cenpn centromere protein N Mtap1b microtubule-associated protein 1B Lck proto-oncogene tyrosine-protein kinase LCK Sqle squalene monooxygenase Apobec2 probable C->U-editing enzyme APOBEC Mettl7b methyltransferase-like protein 7B precursor Mylk myosin light chain kinase, smooth muscle Grk5 G protein-coupled receptor kinase Ehf ETS homologous factor Dpysl2 dihydropyrimidinase-related protein Ppifos Mlf1ip centromere protein U Prdm11 PR domain containing

22 Mthfd2 bifunctional methylenetetrahydrofolate C20Rik Pax3 paired box protein Pax-3 isoform a Dio2 type II iodothyronine deiodinase H23Rik response gene to complement 32 protein Meis2 homeobox protein Meis2 isoform Tnfsf12 tumor necrosis factor ligand superfamily member Nr1h5 nuclear receptor subfamily 1, group H, member Gucy2g guanylate cyclase 2G precursor Pisd-ps Vegfa vascular endothelial growth factor A isoform Rsph4a radial spoke head protein 4 homolog A Plk3 serine/threonine-protein kinase PLK Asb2 ankyrin repeat and SOCS box protein Pla2g2c group IIC secretory phospholipase A2 precursor Sap25 histone deacetylase complex subunit SAP Sulf2 extracellular sulfatase Sulf-2 precursor Olfm1 noelin isoform c Sdk1 protein sidekick-1 precursor AI Snai1 zinc finger protein SNAI Gm9790 HIG1 domain family, member 1A-like Ccrn4l nocturnin Ccl2 C-C motif chemokine Chsy3 chondroitin sulfate synthase Irf1 interferon regulatory factor 1 isoform a Tgfb1i1 transforming growth factor beta-1-induced Depdc1b DEP domain-containing protein 1B Emr4 EGF-like module-containing mucin-like hormone Afap1l1 actin filament-associated protein 1-like Ckap2l cytoskeleton-associated protein 2-like Zbtb10 zinc finger and BTB domain containing Tmc4 transmembrane channel-like protein Whrn whirlin isoform Mlf1 myeloid leukemia factor 1 isoform a Pappa pappalysin-1 precursor Ccdc30 coiled-coil domain-containing protein Ndp norrin precursor Pnma5 paraneoplastic antigen-like protein Hs3st6 heparan sulfate glucosamine 3-O-sulfotransferase Prrt2 proline-rich transmembrane protein Cyp2g1 cytochrome P450, family 2, subfamily g, Ccne1 G1/S-specific cyclin-e Fbn2 fibrillin-2 precursor A630001G21Rik hypothetical protein LOC Gm5887 MANSC domain-containing protein ENSP Ntn5 netrin A430110N23Rik soluble scavenger receptor cysteine-rich Glt1d1 glycosyltransferase 1 domain-containing protein Hbegf proheparin-binding EGF-like growth factor D130020L05Rik Creb5 cyclic AMP-responsive element-binding protein Krt17 keratin, type I cytoskeletal S100a7a protein S100-A15A Rgs16 regulator of G-protein signaling Ncaph condensin complex subunit Gkn1 gastrokine Lepr leptin receptor isoform Plekho1 pleckstrin homology domain-containing family O Nrg1 pro-neuregulin-1, membrane-bound isoform F2rl3 proteinase-activated receptor 4 precursor Rimkla N-acetylaspartyl-glutamate synthetase A Nr2f2 COUP transcription factor 2 isoform Fibin fin bud initiation factor homolog precursor Homer1 homer protein homolog 1 isoform S Rsph1 radial spoke head 1 homolog Wdr86 WD repeat domain K07Rik hypothetical protein LOC Akr1c19 aldo-keto reductase family 1, member C Psors1c2 psoriasis susceptibility 1 candidate gene Igf2 insulin-like growth factor II isoform E2f1 transcription factor E2F Bard1 BRCA1-associated RING domain protein Egfl6 epidermal growth factor-like protein Nkain2 sodium/potassium-transporting ATPase subunit Tmem200a transmembrane protein 200A Pcdhb11 protocadherin beta Rasd2 GTP-binding protein Rhes precursor Thpo thrombopoietin precursor H2-T24 histocompatibility 2, T region locus Cnrip1 CB1 cannabinoid receptor-interacting protein Zwilch protein zwilch homolog Ctsl cathepsin L1 preproprotein Rad51 DNA repair protein RAD51 homolog Rerg ras-related and estrogen-regulated growth Ttk dual specificity protein kinase TTK isoform Gm13308 C-C motif chemokine 27-like Fam54a DUF729 domain containing A06Rik hypothetical protein LOC Cd40 tumor necrosis factor receptor superfamily G6b Slc47a2 multidrug and toxin extrusion protein