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Table 4 Selected Early and Late Genes in Adult Spo11-/- Testes and Juvenile Wild-Type Testes

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Table 4 Selected early and late genes in adult Spo11-/- testes and juvenile wild-type testes Average signal ratio Adult wild- 15dpp wild- Adult 15dpp type vs type vs Spo11 -/- vs Spo11 -/- vs reference adult wild- adult wild- 15dpp wild- GO/ Biological process ID Name RNA type type type Cluster 1 regulation of transcription, DNA-dependent BG086576 ankyrin repeat and FYVE domain containing 1 0.45 1.94 2.76 1.29 induction of programmed cell death BG074245 pleiomorphic adenoma gene-like 2 0.79 1.95 2.72 1.10 induction of programmed cell death BG065030 glutathione peroxidase 1 0.37 1.25 5.23 0.85 regulation of transcription, DNA-dependent BG072554 ankyrin repeat domain 10 0.21 1.84 2.05 0.98 regulation of transcription, DNA-dependent BG075473 nuclear receptor subfamily 3, group C, member 1 0.76 1.16 2.87 1.15 regulation of cell cycle BG077774 v-abl Abelson murine leukemia oncogene 1 0.27 1.70 2.23 1.04 germ-cell development BG063365 chemokine (C-X-C motif) receptor 4 0.48 1.77 2.41 0.98 regulation of transcription, DNA-dependent BG087880 jumonji, AT rich interactive domain 1C (Rbp2 like) 0.37 1.90 3.07 1.27 fertilization (sensu Animalia) BG073671 milk fat globule-EGF factor 8 protein 0.52 1.42 2.90 0.98 regulation of transcription, DNA-dependent BG084537 replication factor C 1 0.64 1.86 2.55 0.80 regulation of cell cycle BG088254 BRCA2 and CDKN1A interacting protein 1.02 1.30 2.02 0.92 regulation of transcription, DNA-dependent BG085396 transforming growth factor beta 1 induced transcript 4 1.47 0.88 2.25 0.88 positive regulation of transcription BG088871 GATA binding protein 4 (Gata4), mRNA 1.97 1.36 2.34 0.94 DNA damage response, signal transduction resulting in cell cycle arrest BG070939 checkpoint kinase 1 homolog (S. pombe) 0.73 1.84 2.78 1.02 apoptosis BG064583 testis enhanced gene transcript 0.48 1.36 2.21 1.03 apoptosis BG064074 B-cell receptor-associated protein 31 0.44 1.55 2.35 1.46 apoptosis BG085048 caspase recruitment domain family, member 10 0.76 1.17 2.40 1.10 translational initiation BG070960 eukaryotic translation initiation factor 4, gamma 2 0.54 1.38 2.06 0.99 DNA repair BG071999 UV radiation resistance associated gene 0.68 1.62 2.29 0.95 regulation of transcription, DNA-dependent BG073938 single-stranded DNA binding protein 3 0.64 1.56 2.12 1.09 cell death BG072209 clusterin 8.21 1.60 4.50 1.15 anti-apoptosis BG084405 baculoviral IAP repeat-containing 3 0.91 1.11 2.05 1.06 regulation of transcription, DNA-dependent BG086687 transcriptional regulator, SIN3B (yeast) 4.22 1.41 3.08 0.93 regulation of transcription, DNA-dependent BG067190 ankyrin repeat domain 6 0.86 1.93 2.79 1.16 DNA repair BG075420 casein kinase 1, delta 0.34 1.37 2.08 0.82 regulation of transcription, DNA-dependent BG076902 purine rich element binding protein A 0.59 1.80 2.21 0.93 apoptosis BG088241 lymphocyte specific 1 0.34 1.86 2.71 1.07 regulation of transcription, DNA-dependent BG066379 jumonji domain containing 2A 0.21 1.96 4.82 1.25 regulation of transcription, DNA-dependent BG067918 B-cell translocation gene 2, anti-proliferative 0.33 1.35 2.26 1.31 apoptosis BG077957 programmed cell death 6 0.56 1.28 2.01 1.11 regulation of transcription from Pol II promoter BG087452 Wilms tumor homolog 0.32 1.96 3.40 1.20 germ-cell development BG087137 kit oncogene 2.69 1.15 3.90 1.19 regulation of transcription from Pol II promoter BG084377 signal transducer and activator of transcription 3 0.51 1.81 2.88 1.05 DNA repair BG067126 single-strand selective monofunctional uracil DNA glycosylase 0.88 1.40 2.22 2.19 positive regulation of transcription from Pol II promoter BG077765 SRY-box containing gene 8 0.51 1.41 2.84 1.04 spermatogenesis BG064308 acyl-Coenzyme A oxidase 1, palmitoyl 1.65 0.25 5.00 1.01 regulation of transcription, DNA-dependent BG074917 general transcription factor II I 0.72 1.43 2.79 1.15 regulation of transcription, DNA-dependent BG064455 longevity assurance homolog 6 (S. cerevisiae) 0.84 1.58 2.51 1.32 transcription BG075851 polymerase (RNA) II (DNA directed) polypeptide B 0.51 1.16 2.45 1.05 regulation of transcription, DNA-dependent BG085373 GLI-Kruppel family member GLI2 0.51 1.54 2.15 1.19 nuclear division BG071683 centromere autoantigen H 0.59 1.44 2.34 0.99 regulation of transcription, DNA-dependent BG066892 upstream regulatory element binding protein 1e 0.27 2.00 4.33 1.82 translational elongation BG083078 LanC (bacterial lantibiotic synthetase component C)-like 2 0.85 1.43 2.05 0.87 male sex determination BG069156 insulin-like growth factor I receptor 0.41 1.92 2.04 1.03 apoptosis BG081632 Janus kinase 2 0.69 1.38 2.03 0.89 regulation of transcription, DNA-dependent BG072106 nuclear factor of activated T-cells, cytoplasmic, calcineurin-dependent 3 0.79 1.60 2.13 0.90 disassembly of cell structures BG074045 superoxide dismutase 1, soluble 1.15 0.85 2.23 0.96 induction of programmed cell death BG073154 BCL2/adenovirus E1B 19kD interacting protein like 0.86 1.50 2.86 1.08 apoptosis BG086954 amyloid beta (A4) precursor protein 0.59 1.75 2.59 1.12 apoptosis BG085493 ubiquitin-activating enzyme E1C 0.34 1.76 4.35 1.12 regulation of transcription, DNA-dependent BG069856 cyclin C 0.57 1.31 2.19 0.98 regulation of transcription, DNA-dependent BG079354 nuclear receptor co-repressor 2 0.82 1.96 2.52 1.08 anti-apoptosis BG086150 craniofacial development protein 1 0.23 1.46 2.09 0.91 regulation of transcription BG066422 prostaglandin E synthase 2 0.81 1.26 2.46 1.04 nucleotide-excision repair BG073656 serine/threonine kinase 2 0.14 1.96 2.33 1.02 apoptosis BG067419 growth arrest and DNA-damage-inducible 45 gamma 0.53 1.22 2.07 1.11 induction of programmed cell death BG076240 caspase 6 1.02 1.47 2.22 1.11 regulation of transcription, DNA-dependent AW552582 deformed epidermal autoregulatory factor 1 (Drosophila) 0.70 1.65 2.10 1.15 regulation of transcription, DNA-dependent BG077537 RIKEN cDNA 0610009M14 gene 0.65 1.22 2.19 1.08 nuclear division BG086107 pescadillo homolog 1, containing BRCT domain (zebrafish) 0.94 1.98 2.86 0.88 regulation of transcription, DNA-dependent BG084078 jumonji, AT rich interactive domain 1A (Rbp2 like) 1.06 1.85 3.61 1.17 regulation of transcription, DNA-dependent BG075386 bobby sox homolog (Drosophila) 0.89 1.42 2.02 1.01 positive regulation of transcription from Pol II promoter BG073001 cellular nucleic acid binding protein 0.72 1.69 2.08 0.87 fertilization (sensu Animalia) BG075310 transketolase 0.16 1.57 3.16 0.90 binding of sperm to zona pellucida BG084869 RIKEN cDNA A430096B05 gene 0.64 1.74 3.29 1.31 regulation of transcription, DNA-dependent BG079235 cellular repressor of E1A-stimulated genes 0.72 1.40 2.84 0.93 regulation of transcription, DNA-dependent BG064318 retinoic acid induced 1 1.19 0.65 2.77 1.01 cytolysis BG077623 hypoxanthine guanine phosphoribosyl transferase 0.90 1.77 2.01 1.21 regulation of transcription BG064108 PDZ and LIM domain 1 (elfin) 0.30 1.45 2.83 0.80 regulation of transcription, DNA-dependent BG087132 ubiquitin specific protease 49 1.39 1.22 2.04 0.94 DNA repair AU021534 flap structure specific endonuclease 1 0.66 1.76 2.59 0.92 positive regulation of transcription from Pol II promoter BG067330 nuclear receptor subfamily 5, group A, member 1 1.16 1.60 2.83 1.40 translational elongation BG074911 ribosomal protein, large, P1 0.32 1.34 2.12 1.13 induction of programmed cell death BG082842 Bcl-2-related ovarian killer protein 0.49 1.58 2.05 1.01 regulation of transcription, DNA-dependent BG064695 RIKEN cDNA A830092L04 gene 0.64 1.59 2.30 0.92 negative regulation of cell cycle BG086151 CDK2 (cyclin-dependent kinase 2)-associated protein 1 0.63 1.46 2.16 0.91 regulation of transcription, DNA-dependent BG086994 RAB7, member RAS oncogene family 0.41 1.63 2.77 1.12 single strand break repair BG069854 X-ray repair complementing defective repair in Chinese hamster cells 1 0.77 1.56 3.48 1.25 regulation of transcription, DNA-dependent BG069095 interferon consensus sequence binding protein 1 0.91 0.88 2.50 0.96 cell cycle arrest BG086554 microtubule-actin crosslinking factor 1 0.56 1.68 3.30 1.27 S phase of mitotic cell cycle BG084969 origin recognition complex, subunit 2-like (S. cerevisiae) 1.09 1.29 2.02 1.03 DNA repair BG072232 three prime repair exonuclease 1 1.17 1.38 2.09 0.84 S phase of mitotic cell cycle BG081111 topoisomerase (DNA) I 0.62 1.81 2.42 1.03 regulation of transcription, DNA-dependent BG086680 longevity assurance homolog 4 (S. cerevisiae) 0.23 1.86 3.17 0.94 regulation of transcription, DNA-dependent BG072359 fumarylacetoacetate hydrolase 0.61 1.76 2.37 1.04 cytolysis BG067456 lysozyme 1.28 1.77 4.27 0.62 transcription from Pol I promoter BG086106 fibrillarin 0.80 1.89 2.62 1.08 regulation of transcription, DNA-dependent BG076024 enhancer of zeste homolog 1 (Drosophila) 1.11 1.28 2.14 1.09 sex differentiation BG087691 anti-Mullerian hormone type 2 receptor 2.79 1.35 2.99 1.01 cell cycle BG074262 telomeric repeat binding factor 2 0.94 1.78 2.62 1.15 positive regulation of transcription from Pol II promoter BG086322 activating transcription factor 4 0.19 1.54 2.05 0.80 regulation of transcription, DNA-dependent BG088708 nuclear factor, erythroid derived 2,-like 1 0.86 1.38 2.11 1.00 regulation of transcription, DNA-dependent BG078428 placentae and embryos oncofetal gene 0.80 1.45 2.97 0.99 regulation of transcription, DNA-dependent BG068772 AE binding protein 2 0.34 1.74 3.94 1.12 regulation of transcription, DNA-dependent BG076162 zinc finger protein 612 1.44 1.57 2.24 1.20 induction of programmed cell death BG086310 caspase 9 0.42 1.40 2.50 0.98 regulation of
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    Tablet S1. Transcription factors induced at least two fold by OHT with p<0.01 Probe.Set.ID Gene Symbol Gene Title 207826_s_at ID3 inhibitor of DNA binding 3, dominant negative helix-loop-helix protein 218839_at HEY1 hairy/enhancer-of-split related with YRPW motif 1 203574_at NFIL3 nuclear factor, interleukin 3 regulated 209291_at ID4 inhibitor of DNA binding 4, dominant negative helix-loop-helix protein 44783_s_at HEY1 hairy/enhancer-of-split related with YRPW motif 1 220225_at IRX4 iroquois homeobox protein 4 220493_at DMRT1 doublesex and mab-3 related transcription factor 1 204194_at BACH1 BTB and CNC homology 1, basic leucine zipper transcription factor 1 204622_x_at NR4A2 nuclear receptor subfamily 4, group A, member 2 206140_at LHX2 LIM homeobox 2 212696_s_at RNF4 ring finger protein 4 207144_s_at CITED1 Cbp/p300-interacting transactivator, with Glu/Asp-rich carboxy-terminal domain, 1 41037_at TEAD4 TEA domain family member 4 36711_at MAFF v-maf musculoaponeurotic fibrosarcoma oncogene homolog F (avian) 216248_s_at NR4A2 nuclear receptor subfamily 4, group A, member 2 204131_s_at FOXO3A forkhead box O3A 204132_s_at FOXO3A forkhead box O3A 50221_at TFEB transcription factor EB 204281_at TEAD4 TEA domain family member 4 31845_at ELF4 E74-like factor 4 (ets domain transcription factor) 221558_s_at LEF1 lymphoid enhancer-binding factor 1 208502_s_at PITX1 paired-like homeodomain transcription factor 1 204249_s_at LMO2 LIM domain only 2 (rhombotin-like 1) 204798_at MYB v-myb myeloblastosis viral oncogene homolog (avian) 210319_x_at MSX2
  • Suppl Tabl.S4-Bimodal Genes TIVA-Tag

    Suppl Tabl.S4-Bimodal Genes TIVA-Tag

    Lovatt et al. TIVA-tag. Nature Methods Tissue single cells, bimodal genes Culture single cells, bimodal genes UCSC IDS GENE SYMBOL GENE NAME UCSC IDS GENE SYMBOL GENE NAME uc008pup.1 0610031J06Rik RIKEN cDNA 0610031J06 gene uc009kif.1 Urah urate (5-hydroxyiso-) hydrolase uc007wmv.1:uc007wmw.1:uc011zvd.1 1110038F14Rik RIKEN cDNA 1110038F14 gene uc012daf.1 6330407A03Rik RIKEN cDNA 6330407A03 gene uc009nre.1 1190005I06Rik RIKEN cDNA 1190005I06 gene uc008hes.1 8430431K14Rik RIKEN cDNA 8430431K14 gene uc009lpn.1:uc009lpo.1 1700029J07Rik RIKEN cDNA 1700029J07 gene uc007ivs.1 AK038627 uc008mex.2:uc008mey.2 1810024B03Rik RIKEN cDNA 1810024B03 gene uc007fno.1 AK046981 uc007mru.2 1810043H04Rik RIKEN cDNA 1810043H04 gene uc007waz.1 AK085274 uc007rgw.1:uc007rgx.2 2210408I21Rik RIKEN cDNA 2210408I21 gene uc008hiw.1 I830134H01Rik RIKEN cDNA I830134H01 gene uc009igo.1:uc009ign.1 2310010J17Rik RIKEN cDNA 2310010J17 gene uc007ptq.2:uc007ptr.2:uc007ptt.1 Btn1a1 butyrophilin, subfamily 1, member A1 uc007ned.2:uc011ykz.1:uc007nef.2 2410018L13Rik RIKEN cDNA 2410018L13 gene uc008rqf.2 Clca3 chloride channel calcium activated 3 uc008wdb.2:uc008wda.2 2610002J02Rik RIKEN cDNA 2610002J02 gene uc012gkt.1:uc012gkr.1:uc009nlu.1:uc009nlv.1:uc009nls.1:uc009nlr.1:uc009nlt.1:uc012gks.1Clec18a C-type lectin domain family 18, member A uc009pal.2:uc009pak.2 2610203C20Rik RIKEN cDNA 2610203C20 gene uc009gdp.1 Cox7a1 cytochrome c oxidase subunit VIIa 1 uc007nuo.2:uc007nun.2 2700049A03Rik RIKEN cDNA 2700049A03 gene uc008pny.2 Fam198b family with sequence similarity 198, member