Supplementary Table S1. Modified (at least two fold) in HaCa4-shLoxl2 and HaCa4-shSnai1 compared to HaCa4-shEGFP control cells

Gene Symbol# shLoxl2 shSnai1 Description

Basic cellular function (n= 14)

Adssl1 13.02 1.56 Adenylosuccinate synthetase like 1 Asprv1 59.29 4.60 Aspartic peptidase, retroviral-like 1 Atp13a4 35.48 8.04 ATPase type 13A4 Lars2 4.25 4.25 Leucyl-tRNA synthetase, mitochondrial March3 -6.49 -15.63 Membrane-associated ring finger (C3HC4) 3 Mrp63 -22.75 -12.82 Mitochondrial ribosomal 63 Nudt17 -13.54 -1.70 Nudix (nucleoside diphosphate linked moiety X)-type motif 17 Pdss2 -21.40 -4.26 Prenyl (solanesyl) diphosphate synthase, subunit 2 Rbm41 -18.41 -18.90 RNA binding motif protein 41 Rps6kl1 47.53 41.78 Ribosomal protein S6 kinase-like 1 Spnb3 27.29 1.32 Spectrin beta 3 Tekt3 -22.34 -2.00 Tektin 3 Thbd -3.56 -13.24 Thrombomodulin Usp9x -3.04 -16.22 Ubiquitin specific peptidase 9, X

Cell cycle, growth and proliferation (n= 12)

Bub1 -3.89 -14.52 Budding uninhibited by benzimidazoles 1 homolog (S. cerevisiae) Cdc25b -2.45 -12.66 Cell division cycle 25 homolog B (S. cerevisiae) Cgref1 13.09 24.15 Cell growth regulator with EF hand domain 1 Crybb1 -13.29 -1.58 Crystallin, beta B1 Kif15 -31.44 -7.16 Kinesin family member 15 Kif5b -1.89 -12.26 Kinesin family member 5B Kntc2 -3.73 -13.54 Kinetochore associated 2 Nusap1 -4.81 -12.43 Nucleolar and spindle associated protein 1 Prlpc2 3.94 -30.16 Prolactin-like protein C 2 Prlpm 14.08 -2.16 Prolactin-like protein M Prlpn 25.73 1.00 Prolactin-like protein N Sim1 -13.79 -7.78 Single-minded homolog 1 (Drosophila)

Immune response (n= 19)

Ccdc92 8.62 5.64 Coiled-coil domain containing 92 Ccr9 -7.54 -10.90 Chemokine (C-C motif) receptor 9 Csf2 -14.45 -7.08 Colony stimulating factor 2 (granulocyte-macrophage) Cstf2t 39.86 14.17 Cleavage stimulation factor, 3' pre-RNA subunit 2, tau Cxcl11 -19.88 -9.51 Chemokine (C-X-C motif) ligand 11 Ifi202b -2.81 -11.38 Interferon activated 202B Igsf4d -28.02 -1.27 Immunoglobulin superfamily, member 4 Igtp 12.30 2.13 induced GTPase Il33 -3.05 -25.82 Interleukin 33 Il6 -24.83 -12.35 Interleukin 6 Irf5 11.84 1.40 Interferon regulatory factor 5 Itga4 -17.66 -1.50 Integrin alpha 4 Nppb -13.06 -9.93 Natriuretic peptide precursor type B Ticam1 14.26 1.67 Toll-like receptor adaptor molecule 1 Ticam2 -18.34 -3.21 Toll-like receptor adaptor molecule 2 Tlr2 15.70 1.55 Toll-like receptor 2 Tlx1 -13.65 1.00 T-cell leukemia, homeobox 1 Tnfsf12 -36.06 -2.95 (ligand) superfamily, member 12 Tslp 7.89 -19.59 Thymic stromal lymphopoietin

Metabolism (n= 4)

Acsl5 -43.95 -11.31 Acyl-CoA synthetase long-chain family member 5 Adipor2 -4.28 -3.75 Adiponectin receptor 2 Aldh3b2 15.85 -1.78 Aldehyde dehydrogenase 3 family, member B2 Aldh2 39.13 24.72 Aldehyde dehydrogenase 2, mitochondrial

Signal transduction (n=25)

Armcx2 -17.62 -9.24 Armadillo repeat containing, X-linked 2 Calm4 20.11 2.29 Calmodulin 4 Cd200 -5.88 -9.18 Cd200 antigen Cd200r3 -64.94 -27.57 CD200 receptor 3 Cd226 -12.57 -1.72 CD226 antigen Ckb 17.78 2.25 Creatine kinase, brain Map3k8 13.20 1.30 Mitogen activated protein kinase kinase kinase 8 Mycbpap 13.55 1.34 Mycbp associated protein Nkpd1 13.52 2.34 NTPase, KAP family P-loop domain containing 1 Olfr1039 -13.98 -3.55 Olfactory receptor 1039 Olfr330 -43.70 -9.57 Olfactory receptor 330 Olfr878 -16.98 -5.20 Olfactory receptor 878 Olfr993 -22.91 -3.31 Olfactory receptor 993 Protein tyrosine phosphatase, receptor-type, F interacting protein, Ppfibp2 11.46 4.17 binding protein 2 Ptger2 -29.55 -6.71 Prostaglandin E receptor 2 (subtype EP2) Ptger3 -12.09 -1.22 Prostaglandin E receptor 3 (subtype EP3) Rab7l1 19.75 6.61 RAB7, member RAS oncogene family-like 1 Rad9b 12.26 1.79 RAD9 homolog B (S. cerevisiae) Rgl1 10.35 3.00 Ral guanine nucleotide dissociation stimulator,-like 1 Rgl3 -18.92 -8.38 Ral guanine nucleotide dissociation stimulator-like 3 Rif1 -1.37 -12.26 Rap1 interacting factor 1 homolog (yeast) Taar1 -23.96 -9.94 Trace amine-associated receptor 1 Tmem20 13.87 5.74 Transmembrane protein 20 Tmprss4 23.07 1.29 Transmembrane protease, serine 4 Tmtc1 -24.60 -5.97 Transmembrane and tetratricopeptide repeat containing 1

Transcription related (n= 21)

Ankrd38 -13.68 -6.52 Ankyrin repeat domain 38 Aspn -21.38 -20.28 Asporin Atxn3 -7.32 -18.28 Ataxin 3 Cdx4 -18.37 -2.59 Caudal type homeo box 4 Crct1 15.14 4.42 Cysteine-rich C-terminal 1 Ddit4l 1.32 11.47 DNA-damage-inducible transcript 4-like Ehf 16.35 -1.91 Ets homologous factor Foxn2 15.92 -5.08 Forkhead box N2 Ikzf1 -4.22 -11.18 IKAROS family zinc finger 1 Lmo1 -63.31 -9.91 LIM domain only 1 Lrrc49 -13.54 -4.08 Leucine rich repeat containing 49 Lrrcc1 1.69 -12.90 Leucine rich repeat and coiled-coil domain containing 1 Lrrn6c -17.74 -5.90 Leucine rich repeat neuronal 6C Otp -10.58 -2.79 Orthopedia homolog (Drosophila) Rhox5 7.39 17.46 Reproductive homeobox 5 Zdhhc9 -3.61 -5.52 Zinc finger, DHHC domain containing 9 Zfp109 -45.81 -8.08 Zinc finger protein 109 Zfp120 -1.67 -11.76 Zinc finger protein 120 Zfp235 11.56 1.86 Zinc finger protein 235 Zfp646 14.49 1.07 Zinc finger protein 646 Zfp750 21.23 8.98 Zinc finger protein 750

Transport (n= 7)

Abca1 -26.30 -10.41 ATP-binding cassette, sub-family A (ABC1), member 1 Abcg2 13.71 2.96 ATP-binding cassette, sub-family G (WHITE), member 2 Fxyd4 12.26 1.27 FXYD domain-containing ion transport regulator 4 Slc12a1 -54.51 -6.81 Solute carrier family 12, member 1 Slc26a3 -72.86 -16.41 Solute carrier family 26, member 3 Slco4a1 24.58 -1.34 Solute carrier organic anion transporter family, member 4a1 Tap2 11.00 4.40 Transporter 2, ATP-binding cassette, sub-family B (MDR/TAP)

Miscellaneous and unknown function (n=82)

1110014K05Rik 54.51 1.51 RIKEN cDNA 1110014K05 gene 1110067D22Rik 37.20 2.75 RIKEN cDNA 1110067D22 gene 1200009O22Rik -69.42 -14.74 RIKEN cDNA 1200009O22 gene 1700008H02Rik -18.92 -7.56 1700018C11Rik -18.88 -6.85 RIKEN cDNA 1700018C11 gene 1700112E06Rik 20.80 8.11 RIKEN cDNA 1700112E06 gene 1810019J16Rik 12.79 1.70 RIKEN cDNA 1810019J16 gene 2210418O10Rik 1.04 -13.46 RIKEN cDNA 2210418O10 gene 2310002J15Rik 11.98 2.31 RIKEN cDNA 2310002J15 gene 2310002L13Rik 21.09 1.52 RIKEN cDNA 2310002L13 gene 2310007H09Rik 6.71 10.65 RIKEN cDNA 2310007H09 gene 2310043N10Rik 1.87 -17.56 RIKEN cDNA 2310043N10 gene 2310076G13Rik -1.96 -16.16 RIKEN cDNA 2310076G13 gene 2410007B07Rik -12.46 -1.89 RIKEN cDNA 2410007B07 gene 2410075B13Rik 14.62 12.43 RIKEN cDNA 2410075B13 gene 2610018I03Rik 11.89 3.29 RIKEN cDNA 2610018I03 gene 3110003A22Rik 11.49 -1.18 RIKEN cDNA 3110003A22 gene 4632417N05Rik 12.33 1.23 RIKEN cDNA 4632417N05 gene 4833403I15Rik -45.13 -17.32 RIKEN cDNA 4833403I15 gene 4930429B21Rik -23.93 -7.28 4930432K21Rik -17.32 -2.08 RIKEN cDNA 4930432K21 gene 4930521A18Rik -14.32 -2.12 RIKEN cDNA 4930521A18 gene 4933400F03Rik -13.29 -2.57 RIKEN cDNA 4933400F03 gene 9030420J04Rik -1.29 -12.13 RIKEN cDNA 9030420J04 gene 9130211I03Rik 16.96 2.47 RIKEN cDNA 9130211I03 gene A_51_P208047 -10.29 -4.03 A_51_P395313 -12.19 -3.50 A_51_P451515 -18.01 -1.00 A230046K03Rik -1.56 -12.45 RIKEN cDNA A230046K03 gene A530026G17 -13.40 -1.31 Hypothetical protein A530026G17 A930038C07Rik -30.58 -6.75 RIKEN cDNA A930038C07 gene AF071754 -21.40 -7.31 AF357427 -15.79 -10.45 AK015109 -15.31 1.09 AK050994 -14.57 -4.37 AK076360 -20.11 -3.44 AK141479 -12.37 -4.02 AU018778 -6.84 -24.60 Expressed sequence AU018778 AW113486 -14.42 -2.93 B230317C12Rik 14.72 3.46 RIKEN cDNA B230317C12 gene B430105A11Rik -35.28 -5.66 RIKEN cDNA B430105A11 gene B930008K04Rik -44.72 -2.34 RIKEN cDNA B930008K04 gene BB303627 -14.26 -2.73 BC004044 12.26 -1.44 CDNA sequence BC004044 BC006942 -28.77 -12.36 BC024561 -19.82 -5.94 CDNA sequence BC024561 BC035537 24.69 1.17 CDNA sequence BC035537 BF783780 -25.47 -4.63 Brctd1 -4.54 -27.07 BRCT domain containing 1 Bscl2 12.23 3.43 Bernardinelli-Seip congenital lipodystrophy 2 homolog (human) C230078M14Rik -15.19 -8.42 RIKEN cDNA C230078M14Rik gene Clec4d -10.84 -13.92 C-type lectin domain family 4, member d Coq3 -16.71 -69.74 Coenzyme Q3 homolog, methyltransferase (yeast) D3Ertd751e -1.32 -21.43 DNA segment, Chr 3, ERATO Doi 751, expressed EG433882 -45.13 -8.69 Predicted gene, EG433882 ENSMUST00000030142 10.86 1.41 ENSMUST00000037811 -20.42 -3.08 ENSMUST00000051203 -12.76 -3.78 EQC -72.44 -13.15 Fcho1 -5.62 -18.90 FCH domain only 1 Klhl23 -6.63 -24.60 Kelch-like 23 (Drosophila) Lce5a 1.38 44.87 Late cornified envelope 5A Lhcgr -2.35 -15.69 Luteinizing hormone/choriogonadotropin receptor Lpin3 8.11 14.13 Lipin 3 MGC7817 -2.56 -7.83 NAP057167-1 -5.98 -6.98 NAP057209-1 -10.42 -6.68 NAP108772-1 -15.61 -6.10 Nckap1 -11.82 -1.34 NCK-associated protein 1 Plf2 -11.05 4.36 prolactin family 2, subfamily c, member 3 Samd14 1.38 12.69 Sterile alpha motif domain containing 14 Shroom3 1.76 14.57 Shroom family member 3 Slfn10 -1.45 10.90 Schlafen 10 Spink5 -1.01 46.13 Serine peptidase inhibitor, Kazal type 5 Srpx2 -6.27 -16.81 Sushi-repeat-containing protein, X-linked 2 Stfa1 -1.94 27.29 stefin A1 Unc5cl -5.38 -4.24 Unc-5 homolog C (C. elegans)-like V1rh11 -6.84 -17.38 Vomeronasal 1 receptor, H11 Wdr85 -4.19 -19.88 WD40 repeat domain 85 Wfdc5 1.18 15.00 WAP four-disulfide core domain 5 Yif1a 5.62 11.40 Yip1 interacting factor homolog A (S. cerevisiae) Zfhx2as 1.35 11.12 zinc finger homeobox 2, antisense