Supplementary File 5.Microarray analysis of transfected 293T cells (BAP-Msi1 vs. BAP-GFP). Differential expression was assessed through the LIMMA model. The threshold was established two fold enrichment or reduction in BAP-Msi1 transfected cells compared to BAP-GFP, with an adjusted FDR P-value below 0.05. We list genes that respond to BAP-Msi1 expression and we classified them according to Biological Process. Biological Process abbreviations: APOP, apoptosis; CC, cell cycle; DIFF, differentiation; PM, protein modification; PRO, proliferation. * Identified by RIP-Chip as mRNA preferentially associated with BAP-Msi1.
Symbol / Gene Description / Biological Process / Fold ChangeADRA1D / Adrenergic, alpha-1D-, receptor / CC, PRO, APOP / -2.57
AGAP3 / ArfGAP with GTPase domain, ankyrin repeat and PH domain 3 / Other / -5.18
AMD1* / Adenosylmethionine decarboxylase 1 / CC, PRO, DIFF, APOP / 2.44
ANKLE1 / Ankyrin repeat and LEM domain containing 1 / Unknown / -13.28
ARMC8 / Armadillo repeat containing 8 / Unknown / 2.10
ARRDC3 / Arrestin domain containing 3 / PRO, DIFF / 2.01
ASB7 / Ankyrin repeat and SOCS box-containing 7 / PM / 2.36
ATF1 / Activating transcription factor 1 / CC, PRO, DIFF, APOP / 2.45
ATP6V1C1 / ATPase, H+ transporting, lysosomal 42kDa, V1 subunit C1 / APOP / 2.27
B3GALNT2 / Beta-1,3-N-acetylgalactosaminyltransferase 2 / PM / 2.08
B3GALT4 / UDP-Gal:betaGlcNAc beta 1,3-galactosyltransferase, polypeptide 4 / PM / 2.08
BCL2L11 / BCL2-like 11 (apoptosis facilitator) / CC, PRO, DIFF, APOP / 2.22
BMS1 / BMS1 homolog, ribosome assembly protein (yeast) / Other / 2.82
BRD1 / Bromodomain containing 1 / Other / 2.31
BRMS1L / Breast cancer metastasis-suppressor 1-like / Other / 2.50
BTG2 / BTG family, member 2 / CC, PRO, DIFF, APOP, PM / 2.28
BTG3* / BTG family, member 3 / CC, PRO, DIFF, APOP / 2.01
C10orf2 / Chromosome 10 open reading frame 2 / Other / 2.22
C12orf60 / Chromosome 12 open reading frame 60 / Unknown / 2.97
C14orf138 / Chromosome 14 open reading frame 138 / Unknown / 2.41
C16orf70 / Chromosome 16 open reading frame 70 / Unknown / 2.41
C16orf78 / Chromosome 16 open reading frame 78 / Unknown / 2.07
C17orf51 / Chromosome 17 open reading frame 51 / Unknown / 2.56
C1orf55 / Chromosome 1 open reading frame 55 / Unknown / 6.77
C1orf63 / Chromosome 1 open reading frame 63 / Unknown / 2.19
C21orf87 / Chromosome 21 open reading frame 87 / Unknown / 2.83
C2orf27 / Chromosome 2 open reading frame 27 / Unknown / -2.90
C2orf42 / Chromosome 2 open reading frame 42 / Other / 2.55
C5orf26 / Chromosome 5 open reading frame 26 / PRO / 2.16
C7orf53 / Chromosome 7 open reading frame 53 / Unknown / 3.85
C9orf163 / Chromosome 9 open reading frame 163 / Unknown / -5.94
CACNA1G / Calcium channel, voltage-dependent, T type, alpha 1G subunit / CC, PRO, APOP / -3.21
CALR3 / Calreticulin 3 / Other / 2.14
CAMK2N2 / Calcium/calmodulin-dependent protein kinase II inhibitor 2 / Unknown / -3.35
CASP8AP2 / Caspase 8 associated protein 2 / DIFF, APOP / 2.48
CCDC6 / Coiled-coil domain containing 6 / APOP / 2.01
CCNL1 / Cyclin L1 / CC, APOP / 2.34
CDKN2D / Cyclin-dependent kinase inhibitor 2D (p19, inhibits CDK4) / CC, PRO, DIFF, APOP / 2.20
CENPQ / Centromere protein Q / Unknown / 2.15
CLDN3 / Claudin 3 / APOP / -28.86
CLK1 / CDC-like kinase 1 / CC, PRO, DIFF, PM / 2.76
CLK4 / CDC-like kinase 4 / DIFF, PM / 2.56
CLP1 / CLP1, cleavage and polyadenylation factor I subunit, homolog (S. cerevisiae) / CC / 2.02
CNOT1 / CCR4-NOT transcription complex, subunit 1 / Unknown / 2.19
CNOT6 / CCR4-NOT transcription complex, subunit 6 / Other / 2.69
COL27A1 / Collagen, type XXVII, alpha 1 / Other / -3.25
COPZ1 / Coatomer protein complex, subunit zeta 1 / Other / -2.49
COX6B2 / Cytochrome c oxidase subunit VIb polypeptide 2 (testis) / Other / -4.28
CREBL2 / cAMP responsive element binding protein-like 2 / Other / 2.00
CSGLCA-T / Chondroitin sulfate glucuronyltransferase / Unknown / 2.55
CSTF1 / Cleavage stimulation factor, 3' pre-RNA, subunit 1, 50kDa / PRO / 2.29
CTSB / Cathepsin B / CC, PRO, DIFF, APOP / -5.42
CUGBP1 / CUG triplet repeat, RNA binding protein 1 / CC, PRO, DIFF, APOP / 2.63
DDX3X / DEAD (Asp-Glu-Ala-Asp) box polypeptide 3, X-linked / PRO, APOP / 2.19
DEPDC1* / DEP domain containing 1 / CC / 2.27
DEPDC5 / DEP domain containing 5 / Other / 2.17
DHRS2* / Dehydrogenase/reductase (SDR family) member 2 / CC, PRO / 2.12
DNAJC27 / DnaJ (Hsp40) homolog, subfamily C, member 27 / PRO / 2.65
DUSP19 / Dual specificity phosphatase 19 / DIFF, PM / 2.27
DUSP3 / Dual specificity phosphatase 3 / CC, DIFF, PM / -3.42
E2F8 / E2F transcription factor 8 / CC, PRO / 2.09
EFNA2 / Ephrin-A2 / PRO / -2.56
EFNB3 / Ephrin-B3 / DIFF / -9.17
EGR1 / Early growth response 1 / CC, PRO, DIFF, APOP / 2.43
EIF4E / Eukaryotic translation initiation factor 4E / CC, PRO, DIFF, APOP / 2.05
EIF5 / Eukaryotic translation initiation factor 5 / CC, PRO, APOP / 2.26
ELN / Elastin / CC, PRO, DIFF, APOP / -2.36
ERCC2 / Excision repair cross-complementing rodent repair deficiency, complementation group 2 / CC, PRO, DIFF, APOP / -2.30
FAM108A1 / Family with sequence similarity 108, member A1 / Unknown / -4.30
FAM129B / Family with sequence similarity 129, member B / Unknown / -23.03
FAM18B / Family with sequence similarity 18, member B / Unknown / 2.13
FAM18B2 / Family with sequence similarity 18, member B2 / Unknown / 2.44
FAM76B* / Family with sequence similarity 76, member B / Unknown / 2.98
FAM91A1 / Family with sequence similarity 91, member A1 / Unknown / 2.30
FBRS / Fibrosin / Other / -7.83
FBXO28* / F-box protein 28 / PM / 2.41
FBXO5 / F-box protein 5 / CC, PRO, DIFF, PM / 2.34
FCRLB / Fc receptor-like B / Other / -6.59
FGF3 / Fibroblast growth factor 3 (murine mammary tumor virus integration site (v-int-2) oncogene homolog) / CC, PRO, DIFF, APOP / -6.67
FICD / FIC domain containing / CC, PRO / 2.10
FLCN / Folliculin / CC / 2.44
FLJ30901 / Hypothetical protein FLJ30901 / Unknown / 2.91
FLJ35390 / Hypothetical LOC255031 / Unknown / -4.58
FOXD1 / Forkhead box D1 / DIFF / -2.74
FUBP1 / Far upstream element (FUSE) binding protein 1 / PRO, DIFF / 2.62
FUSIP1 / FUS interacting protein (serine/arginine-rich) 1 / CC, DIFF / 2.14
GADD45B / Growth arrest and DNA-damage-inducible, beta / CC, PRO, DIFF, APOP / 2.28
GBP4 / Guanylate binding protein 4 / Other / -29.19
GH2 / Growth hormone 2 / CC / -15.32
GK / Glycerol kinase / Other / -5.40
GMEB1 / Glucocorticoid modulatory element binding protein 1 / DIFF, APOP / 3.01
GPR107 / G protein-coupled receptor 107 / Unknown / 3.13
GPR137B* / G protein-coupled receptor 137B / Other / 2.18
GPR25 / G protein-coupled receptor 25 / Other / -6.74
GRIN2C / Glutamate receptor, ionotropic, N-methyl D-aspartate 2C / PRO, DIFF, APOP / -2.99
GTF2I / General transcription factor II, i / CC, PRO, APOP / 2.19
GTF3C4 / General transcription factor IIIC, polypeptide 4, 90kDa / Other / 2.69
HBS1L / HBS1-like (S. cerevisiae) / CC / 2.28
HCRT / Hypocretin (orexin) neuropeptide precursor / PRO, APOP / -4.10
HERPUD1* / Homocysteine-inducible, endoplasmic reticulum stress-inducible, ubiquitin-like domain member 1 / PRO, DIFF, APOP, PM / 2.20
HIPK1 / Homeodomain interacting protein kinase 1 / PRO, APOP, PM / 2.07
HIST2H2AA4 / Histone cluster 2, H2aa4 / Unknown / 2.35
HSD17B6* / Hydroxysteroid (17-beta) dehydrogenase 6 homolog (mouse) / CC, PRO, APOP / 2.01
HSPA6 / Heat shock 70kDa protein 6 (HSP70B') / Other / -4.85
IER2 / Immediate early response 2 / CC, PRO, DIFF, APOP / 2.08
IER5 / Immediate early response 5 / APOP / 2.74
IL23A / Interleukin 23, alpha subunit p19 / APOP / 3.42
IREB2 / Iron-responsive element binding protein 2 / CC, PRO, DIFF / 2.09
KIAA0907 / KIAA0907 / Unknown / 2.30
KIAA0913 / KIAA0913 / Unknown / -3.37
KIAA1333 / KIAA1333 / PM / 2.53
KIAA1627 / KIAA1627 protein / Other / 2.81
KLF11 / Kruppel-like factor 11 / CC, PRO, DIFF, APOP / 2.17
KLF6 / Kruppel-like factor 6 / CC, PRO, DIFF, APOP / 2.16
KLHL11 / Kelch-like 11 (Drosophila) / Unknown / 2.01
KLHL25 / Kelch-like 25 (Drosophila) / Unknown / 2.06
KLK4 / Kallikrein-related peptidase 4 / PRO, DIFF / -5.99
LOC100130920 / Hypothetical protein LOC100130920 / Unknown / -4.71
LOC100130938 / Hypothetical protein LOC100130938 / Unknown / -4.53
LOC100131646 / hypothetical protein LOC100131646 / Unknown / -5.86
LOC170082 / TFIIS central domain-containing protein 1 / Unknown / 2.30
LOC285986 / Hypothetical protein LOC285986 / Unknown / -21.90
LOC400684 / Hypothetical gene supported by BC000922 / Unknown / 2.25
LOC595101 / PI-3-kinase-related kinase SMG-1 pseudogene / Unknown / 2.38
LOC642826 / Hypothetical LOC642826 / Unknown / 2.30
LOC645726 / Similar to thymopoietin zeta / Unknown / 2.30
MAD2L1BP / MAD2L1 binding protein / CC / 2.13
MAFG / v-maf musculoaponeurotic fibrosarcoma oncogene homolog G (avian) / PRO, DIFF, APOP / 2.10
MBD2 / Methyl-CpG binding domain protein 2 / CC, PRO, DIFF, APOP / 4.38
MGC119295 / Similar to Williams-Beuren syndrome critical region protein 19 / Unknown / -2.37
MTF1 / Metal-regulatory transcription factor 1 / PRO, DIFF, APOP / 2.72
NFYA / Nuclear transcription factor Y, alpha / CC, DIFF / 3.75
NHLRC3 / NHL repeat containing 3 / Unknown / 2.77
NOL8 / Nucleolar protein 8 / APOP / 2.09
NRGN / Neurogranin (protein kinase C substrate, RC3) / PRO, DIFF, APOP / -2.02
NUP35 / Nucleoporin 35kDa / Other / 2.44
NUP50 / Nucleoporin 50kDa / DIFF / 3.07
NUP98 / Nucleoporin 98kDa / PRO, DIFF, APOP / 3.92
NY-SAR-48 / Sarcoma antigen NY-SAR-48 / Unknown / 2.16
PAFAH1B2 / Platelet-activating factor acetylhydrolase, isoform Ib, beta subunit 30kDa / Unknown / 2.45
PAK1IP1 / PAK1 interacting protein 1 / Other / 2.02
PBLD / Phenazine biosynthesis-like protein domain containing / Other / -2.96
PDE4DIP / Phosphodiesterase 4D interacting protein / Other / 2.00
PELO / Pelota homolog (Drosophila) / CC, PRO, DIFF / 2.02
PEX13 / Peroxisomal biogenesis factor 13 / DIFF / 2.37
PHC3 / Polyhomeotic homolog 3 (Drosophila) / APOP / 2.36
PIGQ / Phosphatidylinositol glycan anchor biosynthesis, class Q / PM / 2.22
PKNOX1* / PBX/knotted 1 homeobox 1 / CC, PRO, DIFF, APOP / 3.06
PLK2 / Polo-like kinase 2 (Drosophila) / CC, PRO, APOP, PM / 2.35
PLK3 / Polo-like kinase 3 (Drosophila) / CC, PRO, DIFF, APOP, PM / 2.93
PMEPA1 / Prostate transmembrane protein, androgen induced 1 / PRO, DIFF / 9.36
PML / Promyelocytic leukemia / CC, PRO, DIFF, APOP, PM / -8.74
POLD4 / Polymerase (DNA-directed), delta 4 / PRO / -10.60
POLQ / Polymerase (DNA directed), theta / APOP / 2.05
PPP1R10 / Protein phosphatase 1, regulatory (inhibitor) subunit 10 / CC, APOP / 2.15
PPP4R2 / Protein phosphatase 4, regulatory subunit 2 / PM / 3.22
PTGER1 / Prostaglandin E receptor 1 (subtype EP1), 42kDa / CC, PRO, DIFF, APOP / -2.08
PUM2 / Pumilio homolog 2 (Drosophila) / Other / 2.02
RAB8B / RAB8B, member RAS oncogene family / Other / 2.12
RABEP1 / Rabaptin, RAB GTPase binding effector protein 1 / DIFF, APOP / 2.37
RABGGTB* / Rab geranylgeranyltransferase, beta subunit / PM / 2.39
RASSF1 / Ras association (RalGDS/AF-6) domain family member 1 / CC, PRO, DIFF, APOP / 2.46
RCOR3 / REST corepressor 3 / Other / 2.30
RIF1 / RAP1 interacting factor homolog (yeast) / CC, PRO, DIFF, APOP / 2.42
RLF / Rearranged L-myc fusion / Other / 2.29
RNF149 / Ring finger protein 149 / PM / 2.26
RNF4 / Ring finger protein 4 / PRO, DIFF / 2.28
RP2 / Retinitis pigmentosa 2 (X-linked recessive) / Other / 2.02
RPS2 / Ribosomal protein S2 / PRO, DIFF / 2.29
RRAS / Related RAS viral (r-ras) oncogene homolog / CC, PRO, DIFF, APOP / -5.65
RSRC2 / Arginine/serine-rich coiled-coil 2 / Unknown / 2.24
RXFP3 / Relaxin/insulin-like family peptide receptor 3 / Other / -2.07
SCAND1 / SCAN domain containing 1 / CC, PRO, DIFF / -3.97
SEC14L1 / SEC14-like 1 (S. cerevisiae) / Other / 2.18
SEH1L / SEH1-like (S. cerevisiae) / Other / 2.43
SERTAD1 / SERTA domain containing 1 / CC, PRO / 2.75
SETD4 / SET domain containing 4 / Unknown / 2.05
SFRS5 / Splicing factor, arginine/serine-rich 5 / PRO, DIFF / 2.01
SGK1 / Serum/glucocorticoid regulated kinase 1 / CC, PRO, DIFF, APOP, PM / 2.41
SIGLEC15 / Sialic acid binding Ig-like lectin 15 / Unknown / -2.68
SLC25A25 / Solute carrier family 25 (mitochondrial carrier; phosphate carrier), member 25 / DIFF, APOP / 2.17
SLC30A1 / Solute carrier family 30 (zinc transporter), member 1 / APOP / 2.01
SLC31A2 / Solute carrier family 31 (copper transporters), member 2 / PRO / 2.07
SLC36A1 / Solute carrier family 36 (proton/amino acid symporter), member 1 / DIFF / -4.15
SMC3 / Structural maintenance of chromosomes 3 / CC, PRO, DIFF, APOP / -19.83
SMC5 / Structural maintenance of chromosomes 5 / CC, PRO / 2.17
SMG1 / PI-3-kinase-related kinase SMG-1 / CC, PM / 2.05
SNHG12 / Small nucleolar RNA host gene 12 (non-protein coding) / Unknown / 2.00
SNX5 / Sorting nexin 5 / APOP / 2.25
SON / SON DNA binding protein / DIFF / 2.50
SPATA5L1 / Spermatogenesis associated 5-like 1 / Other / 2.28
SPN / Sialophorin / CC, PRO, DIFF, APOP / -2.34
STK17B / Serine/threonine kinase 17b / DIFF, APOP, PM / 2.02
STK38L / Serine/threonine kinase 38 like / DIFF, PM / 2.30
TEX14 / Testis expressed 14 / PM / 2.34
THSD1 / Thrombospondin, type I, domain containing 1 / Other / 2.06
TLX2 / T-cell leukemia homeobox 2 / CC, PRO, DIFF, APOP / -4.93
TM6SF2 / Transmembrane 6 superfamily member 2 / Unknown / -2.32
TMEM170A / Transmembrane protein 170A / Unknown / 2.03
TMEM199 / Transmembrane protein 199 / Unknown / 2.11
TMEM50B / Transmembrane protein 50B / Other / -4.15
TMPO / Thymopoietin / CC, DIFF, APOP / 2.41
TPM3 / Tropomyosin 3 / PRO, DIFF / 3.24
TRIP11 / Thyroid hormone receptor interactor 11 / CC / 2.51
TROVE2 / TROVE domain family, member 2 / APOP / -3.36
TUBA8 / Tubulin, alpha 8 / Other / 2.09
TUSC2 / Tumor suppressor candidate 2 / CC, PRO, DIFF, APOP / 2.08
TXNIP / Thioredoxin interacting protein / CC, PRO, DIFF, APOP / 2.97
UBFD1 / Ubiquitin family domain containing 1 / PM / 2.04
URB2 / URB2 ribosome biogenesis 2 homolog (S. cerevisiae) / Unknown / 2.43
USPL1 / Ubiquitin specific peptidase like 1 / Other / 2.01
VASN / Vasorin / Other / 2.01
VWA1 / Von Willebrand factor A domain containing 1 / DIFF / -2.41
WBSCR19 / Williams Beuren syndrome chromosome region 19 / Unknown / -2.22
WDR26 / WD repeat domain 26 / Unknown / 2.08
WDR73 / WD repeat domain 73 / Unknown / 2.31
WHDC1 / WAS protein homology region 2 domain containing 1 / Unknown / 2.19
WHSC1 / Wolf-Hirschhorn syndrome candidate 1 / PRO / -2.31
WTAP* / Wilms tumor 1 associated protein / CC, PRO, APOP / 2.20
YOD1 / YOD1 OTU deubiquinating enzyme 1 homolog (S. cerevisiae) / PM / 2.05
YPEL4 / Yippee-like 4 (Drosophila) / Unknown / -44.22
ZCCHC10 / Zinc finger, CCHC domain containing 10 / Unknown / 2.08
ZCCHC8 / Zinc finger, CCHC domain containing 8 / Other / 2.31
ZKSCAN5 / Zinc finger with KRAB and SCAN domains 5 / Other / 2.11
ZNF14 / Zinc finger protein 14 / Other / 2.12
ZNF180 / Zinc finger protein 180 / PRO, DIFF / 2.20
ZNF200 / Zinc finger protein 200 / Other / 3.17
ZNF222 / Zinc finger protein 222 / Other / 2.07
ZNF256 / Zinc finger protein 256 / DIFF / 2.99
ZNF26 / Zinc finger protein 26 / Other / 2.40
ZNF267 / Zinc finger protein 267 / DIFF / 2.14
ZNF275 / Zinc finger protein 275 / Other / 2.03
ZNF416 / Zinc finger protein 416 / Other / 2.04
ZNF436 / Zinc finger protein 436 / Other / 2.13
ZNF461 / Zinc finger protein 461 / Other / 2.13
ZNF550 / Zinc finger protein 550 / Other / 2.17
ZNF567 / Zinc finger protein 567 / Other / 2.14
ZNF600 / Zinc finger protein 600 / Other / -2.54
ZNF614 / Zinc finger protein 614 / Other / 3.12
ZNF721 / Zinc finger protein 721 / Other / 2.43
ZNF764 / Zinc finger protein 764 / Other / 2.09
ZNF79 / Zinc finger protein 79 / Other / 2.06
ZSWIM3 / Zinc finger, SWIM-type containing 3 / Unknown / 2.25