{"database":"PAXDB","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["http://pax-db.org/downloads/latest/datasets/bioprojects-abundance-files-v4.0.zip"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":{"citationCount":0,"reanalysisCount":0,"viewCount":0,"searchCount":0},"additional":{"omics_type":["Proteomics"],"submitter":["Christian von Mering"],"species":["9940"],"full_dataset_link":["https://pax-db.org/dataset/9940/2716974510"],"submitter_email":["mering@imls.uzh.ch"],"submitter_affiliation":["University of Zurich"],"sample_protocol":[""],"repository":["PAXDB"],"data_protocol":["For the rescaling, the\ndatasets are first parsed or processed such that the data reflect\nproportional abundances of whole protein molecules\n(i.e. proportionality to counts of complete, individual protein\nmolecules, not to molecular weights, protein volumes, or digested\npeptides). In the case of spectral counting data protein. The proportional abundances are rescaled linearly to add up\nto one million; this means the abundance of each protein of\ninterest is finally expressed in (parts per million,) relative to\nall other proteins in a sample. \nFor a given protein abundance dataset, we then compute\nthe absolute log abundance ratios of all pairs of proteins\nannotated to be functionally linked. The median of these absolute\nlog abundance ratios represents an indirect quality\nmetric: the closer it is to zero, the better (i.e. the more there\nis consistency between abundance values and functional annotations\nsuch as protein complexes or pathways). We then\ncompute a background expectation for this metric, by permuting\nthe abundance values in a given dataset randomly,\nand recomputing the median log abundance ratios. The permutation\nis repeated several times, yielding a distribution of\nmedians. The actually observed median is then expressed as a\nZ-score distance to the random distribution ofmedians—this\ndistance is termed the interaction consistency score."],"pubmed_abstract":["The female genital tract includes several anatomical regions whose luminal fluids successively interact with gametes and embryos and are involved in the fertilisation and development processes. The luminal fluids from the inner cervix, the uterus and the oviduct were collected along the oestrous cycle at oestrus (Day 0 of the cycle) and during the luteal phase (Day 10) from adult cyclic ewes. The proteomes were assessed by GeLC-MS/MS and quantified by spectral counting. A set of 940 proteins were identified including 291 proteins differentially present along the cycle in one or several regions. The global analysis of the fluid proteomes revealed a general pattern of endocrine regulation of the tract, with the cervix and the oviduct showing an increased differential proteins abundance mainly at oestrus while the uterus showed an increased abundance mainly during the luteal phase. The proteins more abundant at oestrus included several families such as the heat shock proteins (HSP), the mucins, the complement cascade proteins and several redox enzymes. Other proteins known for their interaction with gametes such as oviductin (OVGP), osteopontin, HSPA8, and the spermadhesin AWN were also overexpressed at oestrus. The proteins more abundant during the luteal phase were associated with the immune system such as ceruloplasmin, lactoferrin, DMBT1, or PIGR, and also with tissue remodeling such as galectin 3 binding protein, alkaline phosphatase, CD9, or fibulin. Several proteins differentially abundant between estrus and the luteal phase, such as myosin 9 and fibronectin, were also validated by immunohistochemistry. The potential roles in sperm transit and uterine receptivity of the proteins differentially regulated along the cycle in the female genital tract are discussed."],"pubmed_title":["Proteomes of the Female Genital Tract During the Oestrous Cycle."],"pubmed_authors":["Soleilhavoup Clement C, Riou Cindy C, Tsikis Guillaume G, Labas Valerie V, Harichaux Gregoire G, Kohnke Philippa P, Reynaud Karine K, de Graaf Simon P SP, Gerard Nadine N, Druart Xavier X"],"data_synonyms":["Add, DmelCG43443, ADD, ADD-87, Hts-RC, data, AU023367, Data Set, protein complex, supply, Proteins, Ovhts, Gene, HtsRC, CG9325, protein, neutral molecular compounds, protein-containing complex, Dmel_CG9325, Xt, Peptide, 1B1, add, Polypeptides, anon-EST:Posey9, protein polypeptide chains, native protein, peptido, htsRC, GLI3-190, natural protein, polypeptide chain, Add-hts, Protein, CG43443, Gene Products, l(2)k14523, Dmel_CG34197, l(2)00634, median, Ovhts-RC, background, supply and distribution, protein aggregate, all_pairs, molecule, Bph, molecula, Random selection by shearing, oligonucleotide random primer, proportion, HTS-R1, HTS, Hts, molecules, peptides, l(2)k06121, adducin, GLI3FL, distribution, AI854843, proportionality, add-like, HTS-RC, rate, proteins, Molekuel, Pdn, sample population, introduction, Protein Gene Products, Gene Proteins, Adducin, RANDOM, 10^[-6], ppm, sample, supply., quotient, Peptid, peptidos, Polypeptide, Attention Deficit Hyperactivity Disorder, l(2)01103, EST D, CG34197, HtsF, ratio"],"pubmed_title_synonyms":["female organism reproductive system, female genitalia, CYCE, l(2)k02602, genitalia of female organism, cycline, female genitals, DmelCG3938, CG3938., systema genitale femininum, CyclE, DmcyclinE, fond, l(2)35Dd, 3938, female genital system, cycE, CycEI, DmcycE, female genital tract, Cyc E, br37, reproductive system of female organism, l(2)br37, CYCLE, gynaecological tissue, cdi7, l(2)k05007, D-CycE, dm-cycE, l(2)k02514, l35Dd, Ccne, DmCycE, cyclinE, BG:DS07108.3, Cdi7, CDI7, CyeE, female organism genitalia, l(2)05206, Proteomes, female reproductive tract"],"pubmed_abstract_synonyms":["Canal, Kinship, Z13 spermadhesin, Macrophage-2 Antigen, BTCC-1, C elegans, fond, LAP-1, TSPAN-29, growth and development, aSFP protein, CycEI, fluid, DRAP-27, Ectocervix, Social Controls, 5730420M11Rik, Ferroxidase, Orthophosphoric-monoester phosphohydrolase (alkaline optimum), Glycoprotein, Phenylethylbarbituric Acid, Immunogold-Silver Techniques, IgE Binding, Antigen, 2, Life Cycle, 6-trione, 4, tissue remodelling, adult, sperm cell, Cervical Canal, SET, Fbln1 protein, X-Bearing, Kinship Network, Menstrual Secretory Phase, Phenylbarbital, Myosin ATPase, proteins, External Os Cervix, alpha 2-Surface Binding Glycoprotein, L 29 Lectin, APase, Germ-Line, endocrine, DmelCG4299, Social, set, Y Chromosome Bearing Sperm, Immunogold-Silver Technic, oviducts, muclin, GP340, Role Concepts, Immunolabeling Technique, 6(1H, female organism genitalia, ferroxidase, Opsonic, hsc71, hsc70, female reproductive tract, ejaculate, PIGR, female genitalia, Y-Chromosome-Bearing, anatomical protrusion, tract of neuraxis, Galectin-3, GIG12, Heat Shock Protein, AQN-2 protein, NMHC-II-C, Actin Activated ATPase, Immunogold Technique, Cyc E, Opsonic Glycoprotein, Uterine, Postovulatory, PIgR, Lactotransferrin, HEL-S-72p, Immunolabeling Technic, Role Concept, BG:DS07108.3, Uterine Cervical, Immunolabeling Technics, Role, Gamete, Germ Cell, NMHC II-C, nerve tract, Leukocyte antigen MIC3, Technics, hsc54, l(2)05206, Acid, CD9 antigen, X-Chromosome-Bearing, HLA-DR-associated protein II, HSPA10, FN, LETS Proteins, DI-2, I-2Dm, Mac-2 Antigen, Myosin Adenosine Triphosphatase, 5H)-trione, Immunogold Silver Techniques, Controls, X Bearing Sperm, human, I-2PP1, seminal fluid, 5-ethyl-5-phenylpyrimidine-2, cervix uteri, TAF-IBETA, Epsilon-Binding Protein, Sperms, Cells, Poly-Ig receptor, Cornua, TAF-Ibeta, Globulins, External Os, Binding Proteins, Uterine Cornua, Oxidation Reduction, Hepatocellular carcinoma-associated protein TB6, Regulations, Immunogold-Silver, Secretory Phase, Carrier Protein, Sperm, Stress Proteins, Fe(II):oxygen oxidoreductase activity, cycline, Fundus Uterus, Biocatalysts, GIG2, DmcyclinE, 5H)-Pyrimidinetrione, sperm-binding protein, uterus, motility-related protein, familial spastic paraparesis, PHENYLETHYLMALONYLUREA, Y-Chromosome-Bearing Sperm, Germ Lines, cdi7, Tspan-29, uterine cervix, FSP, sperm binding protein, Germ Line, Opsonic alpha(2)SB Glycoprotein, cyclinE, HSC54, Cdi7, CDI7, Gene Products, Spermatozoon, Germ Line Cells, Phenylethylbarbitursaeure, Y Bearing Sperm, Technique, Sus scrofa, Immunogold Silver Technics, Gametes, neuraxis tract, 3.4.21.-, canalis cervicis uteri, Monosodium Salt, Hysteps, 2pp2a, Hsc73, DmcycE, Oviduct, Structure, CG10574, Hsc70, Hsc71, IgEBP, Phenobarbitol, Enzyme, ATPase, 2PP2A, fibulin 1 protein, myosin, Phenemal, HSC70, Presumptive Structure, HSC71, Embryonic Structure, dSET, dSet, hephaestin, SPERM, salpinx, LF, cell growth-inhibiting gene 2 protein, X-Bearing Sperm, Menstrual Cycle, Family Research, Immunogold Technic, female genitals, pig, Proteins, nip71, Endocervical Canal, Lactoferrin, Immunohistocytochemistry, spermadhesin AQN-1 protein, LETS, Cell, phoA, Fe(II):oxygen oxidoreductase, Concept, Family Members, L-29 Lectin, l(2)k02514, DmCycE, native protein, I-2PP2A, Social Control, leukocyte antigen MIC3, Dm I-2, chemical analysis, FBLN1 protein, uterine tube, Sodium, Y-Bearing, Immunolabeling, Phenylaethylbarbitursaeure, Embryonic, CRP, Secretory component, 5-ethyl-5-phenyl-, Germ-Line Cells, Phase, lap1, MYOSIN, Immunocytochemistry, l(2)k02602, ensemble, cervix of uterus, postnatal growth, Phenylethylbarbituric, TSPAN29, Actomyosin ATPase, Secreted Phosphoprotein 1, D-CycE, Gene Proteins, Actomyosin, Ceruloplasmin Oxidase, Motility-related protein, Families, Cervix, Stress, Immunogold-Silver Technics, DBMT1, Immunolabeling Techniques, regulation, Relatives, Uropontin, Ceruloplasmin, Networks, Op, Phenylethylbarbiturate, Uterine Fundus, IPP2A2, Prenatal Structures, Immune Systems, single-organism developmental process, determination, adult stage, postnatal development, LGALS3, Fundus Uteri, female reproductive tracts, Technic, axonal tract, Hspa10, Uterus Cornua, Sialoprotein 1, HSP71, Actin Activated, Techniques, Ccne, Roles, Immunogold-Silver Technique, Concepts, LAP1, gp300, Sialoprotein I, Formal Social Controls, CBP35, Family Life Cycle, Transport Proteins, AQN-1 protein, X-Chromosome-Bearing Sperm, cervical canal of uterus, Tspan29, enzymes, TAF-I, MRP-1, Cold-Insoluble Globulins, Fundus, 5-ethyl-5-phenyl-2, Ferroxidase I, Endocervix, womb, fbl-1 protein, HSP73, female reproductive tract., caudal segment of uterus, IGAAD, Immune, Adenosinetriphosphatase, DmelCG10574, complement activity, Y-Bearing Sperm, Cold Insoluble Globulins, X Chromosome Bearing Sperm, Growth-inhibiting protein 12, Hsp73, Y-Chromosome-Bearing Sperms, Mucin, MHC16, 3H, Family Life Cycles, Immunogold Technics, Presumptive, phapii, Lactoferricin-H, genitalia of female organism, caeruloplasmin, OPN, Fibronectin, poly-Ig receptor, mouse, Macrophage-2, StF-IT-1, female genital system, Eta-1, Germ-Line Cell, ferroxidase I, br37, Carrier, 5H9 antigen, Cervixes, Immunogold, Immunogold Techniques, Womb, External Os of the Cervix, Redox, Cell growth-inhibiting gene 2 protein, Endocervical Canals, Bos taurus, tspan-29, Carbohydrate-Binding Protein 35, 2410008N15Rik, p24, Carbohydrate Binding Protein 35, Filiation, Adults, Binding Protein, DFNA4, oestrus, IgE, cervical canal, Oxidase, neck of uterus, MIC3, Bone Sialoprotein 1, alpha 2 Surface Binding Glycoprotein, MS/MS, System, Bone Sialoprotein I, 5-Ethyl-5-phenyl-pyrimidine-2, Control, alpha(2)-Ceruloplasmin, CG4299, Uteri, spermatozoid, Prenatal Structure, Life Cycles, Crpd, Monosodium Salt Phenobarbital, l35Dd, spine, Menstrual, Biocatalyst, Phenylethylmalonylurea, i2pp2a, Regulation, Proteomes, Bone, CRP-[a], Family Member, DFNA4A, Myosin Adenosinetriphosphatase, Prenatal, IgE Binding Protein, Gene, tuba uterina, cycE, spermadhesin AQN-3 protein, Network, female genital tract, L30 Lectin, tetraspanin-29, reproductive system of female organism, l(2)br37, PHAPII, CYCLE, protrusion, MYH17, Lfcin-H, luteal phase, myosin 1, Actin-Activated ATPase, Phenobarbital Sodium, Luteal Phase, body fluid, phenobarbital, HEL-33, aSFP spermadhesin, multicopper ferroxidase iron transport mediator activity, hormones, Heat Shock Proteins, CYCE, ferro:O2 oxidoreductase activity, Research, PSEC0156, Cervical Canal of the Uterus, DmelCG3938, MS2, CyclE, ipp2a2, 5-Phenyl-5-ethylbarbituric acid, 3938, X-Bearing Sperms, Endocervical, Stress Protein, hspa10, L-31, Postovulatory Phase, X-Chromosome-Bearing Sperms, cervix, l(2)k05007, dm-cycE, CRP-[b], p80, 5H)-pyrimidinetrione, taf-ibeta, sperm, BM-90 protein, Uterine Cervical Canal, Kinship Networks, Ceruloplasmin Ferroxidase, Mac 2 Antigen, Wombs, Family, Tetraspanin-29, Uterine Cervical Canals, Kaliocin-1, Mac-2, Talalactoferrin, female organism reproductive system, Actomyosin Adenosinetriphosphatase, Formal Social Control, hsp73, igaad, HEPH, enzyme activity, Myosin, Germ, hepatocellular carcinoma-associated protein TB6, group, spermatozoon, L-34, development, Phenobarbituric Acid, Gardenal, HL-29, Embryos, Protein, Systems, I2PP2A, hsp71, Phenobarbital, Heat-Shock Protein, CyeE, BNSP, Epsilon Binding Protein, Cold-Insoluble, tandem MS, tuba uterinae, ceruloplasmin, Embryo, CBP-30, tract, PNMHH, Luminal, CBP-35, Transport Protein, Adenosine Triphosphatase, AQN-3 protein, AWN-1 spermadhesin, systema genitale femininum, Uterine Cervix, 5-Ethyl-5-phenylbarbituric acid, l(2)35Dd, Luteal, Caeruloplasmin, fallopian tube, Presumptive Structures, gynaecological tissue, Protein Gene Products, iron(II): oxygen oxidoreductase activity, NIP71, dSET/TAF-Ibeta, iron II:oxygen oxidoreductase activity, Y-Bearing Sperms, 2610030F17Rik, Lactoferroxin-C, Lactoferroxin-A, Lactoferroxin-B, assay, Macrophage 2 Antigen, AA407739, CD9, growth, CG3938, Phenobarbitone, tubular parts of female reproductive system, Actin-Activated"],"citation_count":["0"],"additional_accession":[]},"is_claimable":false,"name":"Oaries - Uterine fluid, NSAF (Soleilhavoupetal,molcellproteomics2015)","description":"abundance based on NSAF, Interaction consistency score: 2.9, Coverage: 1","dates":{"publication":"2015"},"accession":"2716974510","cross_references":{"pubmed":["26518761"],"uniprot":["W5PIG6_SHEEP","W5Q7C7_SHEEP","W5PKX5_SHEEP","W5QJ31_SHEEP","W5PT68_SHEEP","CAH1_SHEEP","W5PR81_SHEEP","W5P610_SHEEP","W5P303_SHEEP","FIBA_SHEEP","W5P824_SHEEP","SODC_SHEEP","1433Z_SHEEP","W5PFI7_SHEEP","W5PVP5_SHEEP","W5PSZ5_SHEEP","W5P323_SHEEP","PDXK_SHEEP","W5PZ94_SHEEP","CASK_SHEEP","W5PN84_SHEEP","W5Q633_SHEEP","W5Q6H1_SHEEP","W5QHD8_SHEEP","W5PVG1_SHEEP","W5QAB1_SHEEP","W5PTW1_SHEEP","W5Q694_SHEEP","W5NYP8_SHEEP","W5NQL2_SHEEP","W5P1X9_SHEEP","W5PW21_SHEEP","W5PS11_SHEEP","W5PGC5_SHEEP","W5QH43_SHEEP","W5QF93_SHEEP","W5Q6J0_SHEEP","W5PQK7_SHEEP","W5NQP9_SHEEP","W5P500_SHEEP","W5NY70_SHEEP","W5QIL2_SHEEP","W5QIY3_SHEEP","W5P1L7_SHEEP","W5Q4E1_SHEEP","W5QB24_SHEEP","ACLY_SHEEP","S4TZR5_SHEEP","W5QBQ2_SHEEP","B2LYK6_SHEEP","6PGD_SHEEP","A1AT_SHEEP","W5Q7J4_SHEEP","W5PNZ5_SHEEP","RL40_SHEEP","W5P5Q2_SHEEP","W5Q5A6_SHEEP","W5NUE3_SHEEP","W5QBV3_SHEEP","C8BKC5_SHEEP","ANT3_SHEEP","W5PE01_SHEEP","W5P7X3_SHEEP","W5PYC5_SHEEP","W5QFH0_SHEEP","W5NYA7_SHEEP","W5P8E9_SHEEP","1433E_SHEEP","W5P3I5_SHEEP","W5QB02_SHEEP","IDHC_SHEEP","W5PZM9_SHEEP","W5P3R8_SHEEP","W5Q0L1_SHEEP","W5QFS6_SHEEP","W5NRL8_SHEEP","W5QD49_SHEEP","W5Q9H2_SHEEP","W5PYM5_SHEEP","W5NZ47_SHEEP","W5PBM0_SHEEP","W5PE27_SHEEP","W5NW80_SHEEP","W5NPQ4_SHEEP","W5PA59_SHEEP","W5Q9B2_SHEEP","W5PF65_SHEEP","W5PNV0_SHEEP","W5PHX1_SHEEP","W5PGT6_SHEEP","CASA1_SHEEP","W5NS93_SHEEP","W5P9V5_SHEEP","W5PUT6_SHEEP","W5NVT3_SHEEP","W5PIN4_SHEEP","W5NPN4_SHEEP","W5P5W9_SHEEP","ACTB_SHEEP","W5P5A0_SHEEP","NOS1_SHEEP","A8DR93_SHEEP","W5PQ34_SHEEP","W5NY95_SHEEP","W5NXN2_SHEEP","W5NVQ4_SHEEP","W5Q981_SHEEP","W5PAQ4_SHEEP","W5PJ69_SHEEP","W5Q9M2_SHEEP","W5QH35_SHEEP","W5QB61_SHEEP","W5PD15_SHEEP","W5QC89_SHEEP","W5PV74_SHEEP","W5PHW0_SHEEP","W5P9P0_SHEEP","W5P985_SHEEP","W5QHP6_SHEEP","W5NQ45_SHEEP","W5NVC9_SHEEP","W5NSF7_SHEEP","W5PHM0_SHEEP","W5PXU6_SHEEP","W5PYD1_SHEEP","W5PAX6_SHEEP","W5PFV7_SHEEP","W5QHU9_SHEEP","W5QE19_SHEEP","W5PZK7_SHEEP","W5PGW8_SHEEP","PYGL_SHEEP","W5PSF8_SHEEP","W5PS88_SHEEP","W5P256_SHEEP","W5NTW3_SHEEP","THIO_SHEEP","W5NQ72_SHEEP","ALBU_SHEEP","W5P9M2_SHEEP","W5NZJ3_SHEEP","W5QEQ3_SHEEP","W5NUX8_SHEEP","W5QFQ1_SHEEP","W5PGR4_SHEEP","C5IJA0_SHEEP","W5Q0Y3_SHEEP","W5Q5G8_SHEEP","W5NU07_SHEEP","W5QD10_SHEEP","W5QE14_SHEEP","W5Q5K9_SHEEP","W5PRJ4_SHEEP","W5PJG7_SHEEP","W5NZ62_SHEEP","W5P223_SHEEP","W5PWD6_SHEEP","W5PE22_SHEEP","W5QBQ9_SHEEP","W5QBI9_SHEEP","W5QI70_SHEEP","W5PX34_SHEEP","W5Q466_SHEEP","W5PRS6_SHEEP","W5P214_SHEEP","W5PVT6_SHEEP","W5PQH2_SHEEP","W5PKD3_SHEEP","W5Q0Q1_SHEEP","W5QGS4_SHEEP","W5PDJ4_SHEEP","W5PJN0_SHEEP","W5QG16_SHEEP","W5P9U4_SHEEP","W5QGD1_SHEEP","W5PK66_SHEEP","W5PC00_SHEEP","W5PJC2_SHEEP","CERU_SHEEP","CAH2_SHEEP","TTHY_SHEEP","W5P8R3_SHEEP","ANXA2_SHEEP","HBB_SHEEP","AL1A1_SHEEP","W5QJ50_SHEEP","W5P627_SHEEP","W5PFW3_SHEEP","W5PQF8_SHEEP","W5PAL7_SHEEP","W5PRH3_SHEEP","W5PYG2_SHEEP","W5QEH0_SHEEP","W5PCT4_SHEEP","W5PGS4_SHEEP","W5QE45_SHEEP","W5PVL5_SHEEP","G3P_SHEEP","COF1_SHEEP","W5NZ70_SHEEP","W5P7T1_SHEEP","W5P2R0_SHEEP","W5Q2E1_SHEEP","W5P2W1_SHEEP","W5NU39_SHEEP","W5Q0S2_SHEEP","FETUA_SHEEP","PLMN_SHEEP","W5NUN8_SHEEP","W5PTH1_SHEEP","W5NWV4_SHEEP","W5P1U6_SHEEP","W5PRA0_SHEEP","W5Q831_SHEEP","W5Q9A2_SHEEP","W5P707_SHEEP","W5PN97_SHEEP","W5PQA8_SHEEP","W5Q686_SHEEP","W5Q0N0_SHEEP","W5PB07_SHEEP","W5Q691_SHEEP"]}}