{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,4]],"date-time":"2026-10-04T05:24:36Z","timestamp":1791091476320,"version":"4.1.0"},"reference-count":82,"publisher":"Springer Science and Business Media LLC","issue":"1","content-domain":{"domain":["link.springer.com"],"crossmark-restriction":false},"short-container-title":["BMC Genomics"],"published-print":{"date-parts":[[2012,12]]},"abstract":"<jats:title>Abstract<\/jats:title>\n          <jats:sec>\n            <jats:title>Background<\/jats:title>\n            <jats:p>The placenta is a key component in understanding the physiological processes involved in pregnancy. Characterizing genes critical for placental function can serve as a basis for identifying mechanisms underlying both normal and pathologic pregnancies. Detailing the placental tissue transcriptome could provide a valuable resource for genomic studies related to placental disease.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Results<\/jats:title>\n            <jats:p>We have conducted a deep RNA sequencing (RNA-Seq) study on three tissue components (amnion, chorion, and decidua) of 5 human placentas from normal term pregnancies. We compared the placental RNA-Seq data to that of 16 other human tissues and observed a wide spectrum of transcriptome differences both between placenta and other human tissues and between distinct compartments of the placenta. Exon-level analysis of the RNA-Seq data revealed a large number of exons with differential splicing activities between placenta and other tissues, and 79% (27 out of 34) of the events selected for RT-PCR test were validated. The master splicing regulator <jats:italic>ESRP1<\/jats:italic> is expressed at a proportionately higher level in amnion compared to all other analyzed human tissues, and there is a significant enrichment of ESRP1-regulated exons with tissue-specific splicing activities in amnion. This suggests an important role of alternative splicing in regulating gene function and activity in specific placental compartments. Importantly, genes with differential expression or splicing in the placenta are significantly enriched for genes implicated in placental abnormalities and preterm birth. In addition, we identified 604-1007 novel transcripts and 494-585 novel exons expressed in each of the three placental compartments.<\/jats:p>\n          <\/jats:sec>\n          <jats:sec>\n            <jats:title>Conclusions<\/jats:title>\n            <jats:p>Our data demonstrate unique aspects of gene expression and splicing in placental tissues that provide a basis for disease investigation related to disruption of these mechanisms. These data are publicly available providing the community with a rich resource for placental physiology and disease-related studies.<\/jats:p>\n          <\/jats:sec>","DOI":"10.1186\/1471-2164-13-115","type":"journal-article","created":{"date-parts":[[2012,3,27]],"date-time":"2012-03-27T04:25:43Z","timestamp":1332822343000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":85,"title":["Transcriptome landscape of the human placenta"],"prefix":"10.1186","volume":"13","author":[{"given":"Jinsil","family":"Kim","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Keyan","family":"Zhao","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Peng","family":"Jiang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhi-xiang","family":"Lu","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jinkai","family":"Wang","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jeffrey C","family":"Murray","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yi","family":"Xing","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2012,3,27]]},"reference":[{"key":"4005_CR1","doi-asserted-by":"publisher","DOI":"10.1002\/9781444393927","volume-title":"The placenta: from development to disease","author":"HH Kay","year":"2011","unstructured":"Kay HH, Nelson DM, Wang Y: The placenta: from development to disease. 2011, Chichester, West Sussex: Wiley-Blackwell"},{"issue":"12","key":"4005_CR2","doi-asserted-by":"publisher","first-page":"1254","DOI":"10.1136\/jcp.2008.055236","volume":"61","author":"DJ Roberts","year":"2008","unstructured":"Roberts DJ, Post MD: The placenta in pre-eclampsia and intrauterine growth restriction. J Clin Pathol. 2008, 61 (12): 1254-1260. 10.1136\/jcp.2008.055236.","journal-title":"J Clin Pathol"},{"issue":"12","key":"4005_CR3","doi-asserted-by":"publisher","first-page":"1261","DOI":"10.1136\/jcp.2008.055244","volume":"61","author":"OM Faye-Petersen","year":"2008","unstructured":"Faye-Petersen OM: The placenta in preterm birth. Journal of Clinical Pathology. 2008, 61 (12): 1261-1275. 10.1136\/jcp.2008.055244.","journal-title":"Journal of Clinical Pathology"},{"issue":"9606","key":"4005_CR4","doi-asserted-by":"publisher","first-page":"75","DOI":"10.1016\/S0140-6736(08)60074-4","volume":"371","author":"RL Goldenberg","year":"2008","unstructured":"Goldenberg RL, Culhane JF, Iams JD, Romero R: Epidemiology and causes of preterm birth. Lancet. 2008, 371 (9606): 75-84. 10.1016\/S0140-6736(08)60074-4.","journal-title":"Lancet"},{"issue":"1","key":"4005_CR5","first-page":"1","volume":"60","author":"JA Martin","year":"2011","unstructured":"Martin JA, Hamilton BE, Ventura SJ, Osterman MJ, Kirmeyer S, Mathews TJ, Wilson E: Births: final data for 2009. Natl Vital Stat Rep. 2011, 60 (1): 1-104.","journal-title":"Natl Vital Stat Rep"},{"issue":"9","key":"4005_CR6","doi-asserted-by":"publisher","first-page":"866","DOI":"10.1177\/1933719108322425","volume":"15","author":"AM Mikheev","year":"2008","unstructured":"Mikheev AM, Nabekura T, Kaddoumi A, Bammler TK, Govindarajan R, Hebert MF, Unadkat JD: Profiling gene expression in human placentae of different gestational ages: an OPRU Network and UW SCOR Study. Reprod Sci. 2008, 15 (9): 866-877. 10.1177\/1933719108322425.","journal-title":"Reprod Sci"},{"issue":"2","key":"4005_CR7","doi-asserted-by":"publisher","first-page":"394","DOI":"10.1016\/j.ajog.2005.08.057","volume":"195","author":"R Haddad","year":"2006","unstructured":"Haddad R, Tromp G, Kuivaniemi H, Chaiworapongsa T, Kim YM, Mazor M, Romero R: Human spontaneous labor without histologic chorioamnionitis is characterized by an acute inflammation gene expression signature. American journal of obstetrics and gynecology. 2006, 195 (2): 394-405. 10.1016\/j.ajog.2005.08.057.","journal-title":"American journal of obstetrics and gynecology"},{"issue":"1","key":"4005_CR8","doi-asserted-by":"publisher","first-page":"61","DOI":"10.1093\/molehr\/gam083","volume":"14","author":"V Sitras","year":"2008","unstructured":"Sitras V, Paulssen RH, Gronaas H, Vartun A, Acharya G: Gene expression profile in labouring and non-labouring human placenta near term. Molecular Human Reproduction. 2008, 14 (1): 61-65. 10.1093\/molehr\/gam083.","journal-title":"Molecular Human Reproduction"},{"issue":"5","key":"4005_CR9","doi-asserted-by":"publisher","first-page":"424","DOI":"10.1016\/j.placenta.2009.01.012","volume":"30","author":"V Sitras","year":"2009","unstructured":"Sitras V, Paulssen RH, Gronaas H, Leirvik J, Hanssen TA, Vartun A, Acharya G: Differential Placental Gene Expression in Severe Preeclampsia. Placenta. 2009, 30 (5): 424-433. 10.1016\/j.placenta.2009.01.012.","journal-title":"Placenta"},{"issue":"14","key":"4005_CR10","doi-asserted-by":"publisher","first-page":"5478","DOI":"10.1073\/pnas.0508035103","volume":"103","author":"R Sood","year":"2006","unstructured":"Sood R, Zehnder JL, Druzin ML, Brown PO: Gene expression patterns in human placenta. Proc Natl Acad Sci USA. 2006, 103 (14): 5478-5483. 10.1073\/pnas.0508035103.","journal-title":"Proc Natl Acad Sci USA"},{"issue":"5","key":"4005_CR11","doi-asserted-by":"publisher","first-page":"695","DOI":"10.1101\/gr.071407.107","volume":"18","author":"K Knox","year":"2008","unstructured":"Knox K, Baker JC: Genomic evolution of the placenta using co-option and duplication and divergence. Genome Res. 2008, 18 (5): 695-705. 10.1101\/gr.071407.107.","journal-title":"Genome Res"},{"issue":"12","key":"4005_CR12","doi-asserted-by":"publisher","first-page":"1413","DOI":"10.1038\/ng.259","volume":"40","author":"Q Pan","year":"2008","unstructured":"Pan Q, Shai O, Lee LJ, Frey BJ, Blencowe BJ: Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing. Nat Genet. 2008, 40 (12): 1413-1415. 10.1038\/ng.259.","journal-title":"Nat Genet"},{"issue":"7221","key":"4005_CR13","doi-asserted-by":"publisher","first-page":"470","DOI":"10.1038\/nature07509","volume":"456","author":"ET Wang","year":"2008","unstructured":"Wang ET, Sandberg R, Luo S, Khrebtukova I, Zhang L, Mayr C, Kingsmore SF, Schroth GP, Burge CB: Alternative isoform regulation in human tissue transcriptomes. Nature. 2008, 456 (7221): 470-476. 10.1038\/nature07509.","journal-title":"Nature"},{"issue":"11","key":"4005_CR14","doi-asserted-by":"crossref","first-page":"741","DOI":"10.1038\/nrm2777","volume":"10","author":"M Chen","year":"2009","unstructured":"Chen M, Manley JL: Mechanisms of alternative splicing regulation: insights from molecular and genomics approaches. Nature Reviews Molecular Cell Biology. 2009, 10 (11): 741-","journal-title":"Nature Reviews Molecular Cell Biology"},{"issue":"10","key":"4005_CR15","doi-asserted-by":"publisher","first-page":"749","DOI":"10.1038\/nrg2164","volume":"8","author":"GS Wang","year":"2007","unstructured":"Wang GS, Cooper TA: Splicing in disease: disruption of the splicing code and the decoding machinery. Nat Rev Genet. 2007, 8 (10): 749-761. 10.1038\/nrg2164.","journal-title":"Nat Rev Genet"},{"issue":"4","key":"4005_CR16","doi-asserted-by":"publisher","first-page":"186","DOI":"10.1016\/S0168-9525(01)02626-9","volume":"18","author":"JF Caceres","year":"2002","unstructured":"Caceres JF, Kornblihtt AR: Alternative splicing: multiple control mechanisms and involvement in human disease. Trends Genet. 2002, 18 (4): 186-193. 10.1016\/S0168-9525(01)02626-9.","journal-title":"Trends Genet"},{"issue":"5","key":"4005_CR17","doi-asserted-by":"publisher","first-page":"441","DOI":"10.1038\/sj.cdd.4401593","volume":"12","author":"N Soleymanlou","year":"2005","unstructured":"Soleymanlou N, Wu Y, Wang JX, Todros T, Ietta F, Jurisicova A, Post M, Caniggia I: A novel Mtd splice isoform is responsible for trophoblast cell death in pre-eclampsia. Cell Death Differ. 2005, 12 (5): 441-452. 10.1038\/sj.cdd.4401593.","journal-title":"Cell Death Differ"},{"issue":"12","key":"4005_CR18","doi-asserted-by":"publisher","first-page":"1566","DOI":"10.1161\/CIRCRESAHA.108.171504","volume":"102","author":"S Sela","year":"2008","unstructured":"Sela S, Itin A, Natanson-Yaron S, Greenfield C, Goldman-Wohl D, Yagel S, Keshet E: A novel human-specific soluble vascular endothelial growth factor receptor 1: cell-type-specific splicing and implications to vascular endothelial growth factor homeostasis and preeclampsia. Circ Res. 2008, 102 (12): 1566-1574. 10.1161\/CIRCRESAHA.108.171504.","journal-title":"Circ Res"},{"issue":"3","key":"4005_CR19","doi-asserted-by":"publisher","first-page":"250","DOI":"10.1016\/j.placenta.2008.12.010","volume":"30","author":"M Heydarian","year":"2009","unstructured":"Heydarian M, McCaffrey T, Florea L, Yang Z, Ross MM, Zhou W, Maynard SE: Novel splice variants of sFlt1 are upregulated in preeclampsia. Placenta. 2009, 30 (3): 250-255. 10.1016\/j.placenta.2008.12.010.","journal-title":"Placenta"},{"issue":"1","key":"4005_CR20","doi-asserted-by":"publisher","first-page":"57","DOI":"10.1038\/nrg2484","volume":"10","author":"Z Wang","year":"2009","unstructured":"Wang Z, Gerstein M, Snyder M: RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet. 2009, 10 (1): 57-63. 10.1038\/nrg2484.","journal-title":"Nat Rev Genet"},{"issue":"5","key":"4005_CR21","doi-asserted-by":"publisher","first-page":"511","DOI":"10.1038\/nbt.1621","volume":"28","author":"C Trapnell","year":"2010","unstructured":"Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, van Baren MJ, Salzberg SL, Wold BJ, Pachter L: Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. Nature Biotechnology. 2010, 28 (5): 511-515. 10.1038\/nbt.1621.","journal-title":"Nature Biotechnology"},{"issue":"7","key":"4005_CR22","doi-asserted-by":"publisher","first-page":"621","DOI":"10.1038\/nmeth.1226","volume":"5","author":"A Mortazavi","year":"2008","unstructured":"Mortazavi A, Williams BA, McCue K, Schaeffer L, Wold B: Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat Methods. 2008, 5 (7): 621-628. 10.1038\/nmeth.1226.","journal-title":"Nat Methods"},{"issue":"16","key":"4005_CR23","doi-asserted-by":"publisher","first-page":"6062","DOI":"10.1073\/pnas.0400782101","volume":"101","author":"AI Su","year":"2004","unstructured":"Su AI, Wiltshire T, Batalov S, Lapp H, Ching KA, Block D, Zhang J, Soden R, Hayakawa M, Kreiman G: A gene atlas of the mouse and human protein-encoding transcriptomes. Proc Natl Acad Sci USA. 2004, 101 (16): 6062-6067. 10.1073\/pnas.0400782101.","journal-title":"Proc Natl Acad Sci USA"},{"key":"4005_CR24","doi-asserted-by":"crossref","unstructured":"Blake JA, Bult CJ, Kadin JA, Richardson JE, Eppig JT: The Mouse Genome Database (MGD): premier model organism resource for mammalian genomics and genetics. Nucleic Acids Res. 2011, D842-848. 39 Database","DOI":"10.1093\/nar\/gkq1008"},{"key":"4005_CR25","unstructured":"The Mouse Genome Informatics database. [http:\/\/www.informatics.jax.org\/]"},{"issue":"7-8","key":"4005_CR26","doi-asserted-by":"publisher","first-page":"514","DOI":"10.1159\/000294202","volume":"13","author":"SM Dolan","year":"2010","unstructured":"Dolan SM, Hollegaard MV, Merialdi M, Betran AP, Allen T, Abelow C, Nace J, Lin BK, Khoury MJ, Ioannidis JP: Synopsis of preterm birth genetic association studies: the preterm birth genetics knowledge base (PTBGene). Public Health Genomics. 2010, 13 (7-8): 514-523. 10.1159\/000294202.","journal-title":"Public Health Genomics"},{"key":"4005_CR27","unstructured":"The Preterm Birth Genetics Knowledge Base. [http:\/\/bioinformatics.aecom.yu.edu\/ptbgene\/index.html]"},{"issue":"5","key":"4005_CR28","doi-asserted-by":"publisher","first-page":"P3","DOI":"10.1186\/gb-2003-4-5-p3","volume":"4","author":"G Dennis Jr","year":"2003","unstructured":"Dennis G, Sherman BT, Hosack DA, Yang J, Gao W, Lane HC, Lempicki RA: DAVID: Database for Annotation, Visualization, and Integrated Discovery. Genome Biol. 2003, 4 (5): P3-10.1186\/gb-2003-4-5-p3.","journal-title":"Genome Biol"},{"key":"4005_CR29","unstructured":"The Database for Annotation, Visualization and Integrated Discovery. [http:\/\/david.abcc.ncifcrf.gov\/]"},{"key":"4005_CR30","doi-asserted-by":"publisher","DOI":"10.1007\/978-3-642-23941-0","volume-title":"Pathology of the human placenta","author":"K Benirschke","year":"2012","unstructured":"Benirschke K: Pathology of the human placenta. 2012, New York: Springer"},{"issue":"9","key":"4005_CR31","doi-asserted-by":"publisher","first-page":"2129","DOI":"10.1101\/gr.772403","volume":"13","author":"PD Thomas","year":"2003","unstructured":"Thomas PD, Campbell MJ, Kejariwal A, Mi H, Karlak B, Daverman R, Diemer K, Muruganujan A, Narechania A: PANTHER: a library of protein families and subfamilies indexed by function. Genome Research. 2003, 13 (9): 2129-2141. 10.1101\/gr.772403.","journal-title":"Genome Research"},{"key":"4005_CR32","doi-asserted-by":"crossref","unstructured":"Thomas PD, Kejariwal A, Guo N, Mi H, Campbell MJ, Muruganujan A, Lazareva-Ulitsky B: Applications for protein sequence-function evolution data: mRNA\/protein expression analysis and coding SNP scoring tools. Nucleic Acids Research. 2006, W645-650. 34 Web Server","DOI":"10.1093\/nar\/gkl229"},{"issue":"5","key":"4005_CR33","doi-asserted-by":"publisher","first-page":"549","DOI":"10.1053\/plac.2002.0923","volume":"24","author":"GE Lash","year":"2003","unstructured":"Lash GE, Warren AY, Underwood S, Baker PN: Vascular endothelial growth factor is a chemoattractant for trophoblast cells. Placenta. 2003, 24 (5): 549-556. 10.1053\/plac.2002.0923.","journal-title":"Placenta"},{"issue":"5","key":"4005_CR34","doi-asserted-by":"publisher","first-page":"815","DOI":"10.1016\/0029-7844(95)00259-T","volume":"86","author":"PN Baker","year":"1995","unstructured":"Baker PN, Krasnow J, Roberts JM, Yeo KT: Elevated serum levels of vascular endothelial growth factor in patients with preeclampsia. Obstet Gynecol. 1995, 86 (5): 815-821. 10.1016\/0029-7844(95)00259-T.","journal-title":"Obstet Gynecol"},{"issue":"2","key":"4005_CR35","doi-asserted-by":"publisher","first-page":"109","DOI":"10.1007\/s00404-007-0430-5","volume":"277","author":"F Akercan","year":"2008","unstructured":"Akercan F, Cirpan T, Terek MC, Ozcakir HT, Giray G, Sagol S, Karadadas N: The immunohistochemical evaluation of VEGF in placenta biopsies of pregnancies complicated by preeclampsia. Arch Gynecol Obstet. 2008, 277 (2): 109-114. 10.1007\/s00404-007-0430-5.","journal-title":"Arch Gynecol Obstet"},{"issue":"4","key":"4005_CR36","first-page":"228","volume":"34","author":"T Cirpan","year":"2007","unstructured":"Cirpan T, Akercan F, Terek MC, Kazandi M, Ozcakir HT, Giray G, Sagol S: Evaluation of VEGF in placental bed biopsies from preeclamptic women by immunohistochemistry. Clin Exp Obstet Gynecol. 2007, 34 (4): 228-231.","journal-title":"Clin Exp Obstet Gynecol"},{"issue":"10","key":"4005_CR37","doi-asserted-by":"publisher","first-page":"956","DOI":"10.1002\/pd.2109","volume":"28","author":"A Farina","year":"2008","unstructured":"Farina A, Sekizawa A, De Sanctis P, Purwosunu Y, Okai T, Cha DH, Kang JH, Vicenzi C, Tempesta A, Wibowo N: Gene expression in chorionic villous samples at 11 weeks' gestation from women destined to develop preeclampsia. Prenat Diagn. 2008, 28 (10): 956-961. 10.1002\/pd.2109.","journal-title":"Prenat Diagn"},{"issue":"6","key":"4005_CR38","doi-asserted-by":"publisher","first-page":"575","DOI":"10.1016\/j.ajog.2010.07.043","volume":"203","author":"A Farina","year":"2010","unstructured":"Farina A, Zucchini C, Sekizawa A, Purwosunu Y, de Sanctis P, Santarsiero G, Rizzo N, Morano D, Okai T: Performance of messenger RNAs circulating in maternal blood in the prediction of preeclampsia at 10-14 weeks. American journal of obstetrics and gynecology. 2010, 203 (6): 575-e571-577","journal-title":"American journal of obstetrics and gynecology"},{"issue":"11","key":"4005_CR39","first-page":"873","volume":"78","author":"A Semczuk-Sikora","year":"2007","unstructured":"Semczuk-Sikora A, Krzyzanowski A, Kwiatek M, Semczuk M: [Maternal serum concentration of placental growth factor (PIGF) and endothelial growth factor (VEGF) in pregnancies complicated by preeclampsia]. Ginekol Pol. 2007, 78 (11): 873-876.","journal-title":"Ginekol Pol"},{"issue":"6","key":"4005_CR40","doi-asserted-by":"publisher","first-page":"1457","DOI":"10.1016\/j.peptides.2005.10.002","volume":"27","author":"CA Sandman","year":"2006","unstructured":"Sandman CA, Glynn L, Schetter CD, Wadhwa P, Garite T, Chicz-DeMet A, Hobel C: Elevated maternal cortisol early in pregnancy predicts third trimester levels of placental corticotropin releasing hormone (CRH): priming the placental clock. Peptides. 2006, 27 (6): 1457-1463. 10.1016\/j.peptides.2005.10.002.","journal-title":"Peptides"},{"issue":"5","key":"4005_CR41","doi-asserted-by":"publisher","first-page":"497","DOI":"10.1111\/j.1447-0756.2006.00441.x","volume":"32","author":"N Vitoratos","year":"2006","unstructured":"Vitoratos N, Papadias K, Makrakis E, Christodoulakos G, Panoulis K, Creatsas G: Association between serum tumor necrosis factor-alpha and corticotrophin-releasing hormone levels in women with preterm labor. J Obstet Gynaecol Res. 2006, 32 (5): 497-501. 10.1111\/j.1447-0756.2006.00441.x.","journal-title":"J Obstet Gynaecol Res"},{"issue":"15","key":"4005_CR42","doi-asserted-by":"publisher","first-page":"4823","DOI":"10.1093\/nar\/gkn463","volume":"36","author":"AR Grosso","year":"2008","unstructured":"Grosso AR, Gomes AQ, Barbosa-Morais NL, Caldeira S, Thorne NP, Grech G, von Lindern M, Carmo-Fonseca M: Tissue-specific splicing factor gene expression signatures. Nucleic Acids Res. 2008, 36 (15): 4823-4832. 10.1093\/nar\/gkn463.","journal-title":"Nucleic Acids Res"},{"issue":"2","key":"4005_CR43","doi-asserted-by":"publisher","first-page":"130","DOI":"10.1038\/nsmb.1545","volume":"16","author":"GW Yeo","year":"2009","unstructured":"Yeo GW, Coufal NG, Liang TY, Peng GE, Fu X-D, Gage FH: An RNA code for the FOX2 splicing regulator revealed by mapping RNA-protein interactions in stem cells. Nat Struct Mol Biol. 2009, 16 (2): 130-10.1038\/nsmb.1545.","journal-title":"Nat Struct Mol Biol"},{"issue":"5","key":"4005_CR44","doi-asserted-by":"publisher","first-page":"591","DOI":"10.1016\/j.molcel.2009.01.025","volume":"33","author":"CC Warzecha","year":"2009","unstructured":"Warzecha CC, Sato TK, Nabet B, Hogenesch JB, Carstens RP: ESRP1 and ESRP2 are epithelial cell-type-specific regulators of FGFR2 splicing. Mol Cell. 2009, 33 (5): 591-601. 10.1016\/j.molcel.2009.01.025.","journal-title":"Mol Cell"},{"issue":"9","key":"4005_CR45","doi-asserted-by":"publisher","first-page":"2825","DOI":"10.1093\/nar\/gkq008","volume":"38","author":"P de la Grange","year":"2010","unstructured":"de la Grange P, Gratadou L, Delord M, Dutertre M, Auboeuf D: Splicing factor and exon profiling across human tissues. Nucleic Acids Res. 2010, 38 (9): 2825-2838. 10.1093\/nar\/gkq008.","journal-title":"Nucleic Acids Res"},{"issue":"19","key":"4005_CR46","doi-asserted-by":"publisher","first-page":"3286","DOI":"10.1038\/emboj.2010.195","volume":"29","author":"CC Warzecha","year":"2010","unstructured":"Warzecha CC, Jiang P, Amirikian K, Dittmar KA, Lu H, Shen S, Guo W, Xing Y, Carstens RP: An ESRP-regulated splicing programme is abrogated during the epithelial-mesenchymal transition. EMBO J. 2010, 29 (19): 3286-3300. 10.1038\/emboj.2010.195.","journal-title":"EMBO J"},{"issue":"21","key":"4005_CR47","doi-asserted-by":"publisher","first-page":"7651","DOI":"10.1093\/nar\/gkq614","volume":"38","author":"CS Bland","year":"2010","unstructured":"Bland CS, Wang ET, Vu A, David MP, Castle JC, Johnson JM, Burge CB, Cooper TA: Global regulation of alternative splicing during myogenic differentiation. Nucleic Acids Res. 2010, 38 (21): 7651-7664. 10.1093\/nar\/gkq614.","journal-title":"Nucleic Acids Res"},{"key":"4005_CR48","volume-title":"Nucleic Acids Res","author":"S Shen","year":"2012","unstructured":"Shen S, Won Park J, Huang J, Dittmar KA, Lu ZX, Zhou Q, Carstens RP, Xing Y: MATS: a Bayesian framework for flexible detection of differential alternative splicing from RNA-Seq data. Nucleic Acids Res. 2012, doi:10.1093\/nar\/gkr1291,"},{"issue":"22","key":"4005_CR49","doi-asserted-by":"publisher","first-page":"10183","DOI":"10.1073\/pnas.88.22.10183","volume":"88","author":"RN Tamura","year":"1991","unstructured":"Tamura RN, Cooper HM, Collo G, Quaranta V: Cell type-specific integrin variants with alternative alpha chain cytoplasmic domains. Proc Natl Acad Sci USA. 1991, 88 (22): 10183-10187. 10.1073\/pnas.88.22.10183.","journal-title":"Proc Natl Acad Sci USA"},{"issue":"3","key":"4005_CR50","doi-asserted-by":"publisher","first-page":"671","DOI":"10.1083\/jcb.117.3.671","volume":"117","author":"EC Lee","year":"1992","unstructured":"Lee EC, Lotz MM, Steele GD, Mercurio AM: The integrin alpha 6 beta 4 is a laminin receptor. J Cell Biol. 1992, 117 (3): 671-678. 10.1083\/jcb.117.3.671.","journal-title":"J Cell Biol"},{"issue":"3","key":"4005_CR51","doi-asserted-by":"publisher","first-page":"398","DOI":"10.1006\/geno.1999.5751","volume":"57","author":"T Heinemann","year":"1999","unstructured":"Heinemann T, Bulwin GC, Randall J, Schnieders B, Sandhoff K, Volk HD, Milford E, Gullans SR, Utku N: Genomic organization of the gene coding for TIRC7, a novel membrane protein essential for T cell activation. Genomics. 1999, 57 (3): 398-406. 10.1006\/geno.1999.5751.","journal-title":"Genomics"},{"issue":"3","key":"4005_CR52","doi-asserted-by":"publisher","first-page":"943","DOI":"10.1016\/j.bbrc.2005.03.065","volume":"330","author":"AS Smirnova","year":"2005","unstructured":"Smirnova AS, Morgun A, Shulzhenko N, Silva ID, Gerbase-DeLima M: Identification of new alternative splice events in the TCIRG1 gene in different human tissues. Biochem Biophys Res Commun. 2005, 330 (3): 943-949. 10.1016\/j.bbrc.2005.03.065.","journal-title":"Biochem Biophys Res Commun"},{"issue":"52","key":"4005_CR53","doi-asserted-by":"publisher","first-page":"54387","DOI":"10.1074\/jbc.M404497200","volume":"279","author":"Y Hu","year":"2004","unstructured":"Hu Y, Leo C, Yu S, Huang BC, Wang H, Shen M, Luo Y, Daniel-Issakani S, Payan DG, Xu X: Identification and functional characterization of a novel human misshapen\/Nck interacting kinase-related kinase, hMINK beta. The Journal of biological chemistry. 2004, 279 (52): 54387-54397. 10.1074\/jbc.M404497200.","journal-title":"The Journal of biological chemistry"},{"issue":"5","key":"4005_CR54","doi-asserted-by":"publisher","first-page":"R53","DOI":"10.1186\/gb-2010-11-5-r53","volume":"11","author":"G Wu","year":"2010","unstructured":"Wu G, Feng X, Stein L: A human functional protein interaction network and its application to cancer data analysis. Genome Biology. 2010, 11 (5): R53-R53. 10.1186\/gb-2010-11-5-r53.","journal-title":"Genome Biology"},{"issue":"12","key":"4005_CR55","doi-asserted-by":"publisher","first-page":"7821","DOI":"10.1073\/pnas.122653799","volume":"99","author":"M Girvan","year":"2002","unstructured":"Girvan M, Newman ME: Community structure in social and biological networks. Proc Natl Acad Sci USA. 2002, 99 (12): 7821-7826. 10.1073\/pnas.122653799.","journal-title":"Proc Natl Acad Sci USA"},{"issue":"5","key":"4005_CR56","doi-asserted-by":"publisher","first-page":"503","DOI":"10.1038\/nbt.1633","volume":"28","author":"M Guttman","year":"2010","unstructured":"Guttman M, Garber M, Levin JZ, Donaghey J, Robinson J, Adiconis X, Fan L, Koziol MJ, Gnirke A, Nusbaum C: Ab initio reconstruction of cell type-specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs. Nat Biotechnol. 2010, 28 (5): 503-510. 10.1038\/nbt.1633.","journal-title":"Nat Biotechnol"},{"issue":"11","key":"4005_CR57","doi-asserted-by":"publisher","first-page":"e1000553","DOI":"10.1371\/journal.pcbi.1000553","volume":"5","author":"N Salomonis","year":"2009","unstructured":"Salomonis N, Nelson B, Vranizan K, Pico AR, Hanspers K, Kuchinsky A, Ta L, Mercola M, Conklin BR: Alternative splicing in the differentiation of human embryonic stem cells into cardiac precursors. PLoS Comput Biol. 2009, 5 (11): e1000553-10.1371\/journal.pcbi.1000553.","journal-title":"PLoS Comput Biol"},{"issue":"10","key":"4005_CR58","doi-asserted-by":"publisher","first-page":"1951","DOI":"10.1371\/journal.pcbi.0030196","volume":"3","author":"GW Yeo","year":"2007","unstructured":"Yeo GW, Xu X, Liang TY, Muotri AR, Carson CT, Coufal NG, Gage FH: Alternative splicing events identified in human embryonic stem cells and neural progenitors. PLoS Comput Biol. 2007, 3 (10): 1951-1967.","journal-title":"PLoS Comput Biol"},{"issue":"1","key":"4005_CR59","doi-asserted-by":"publisher","first-page":"81","DOI":"10.1055\/s-2007-1002413","volume":"18","author":"MA Delorme","year":"1992","unstructured":"Delorme MA, Burrows RF, Ofosu FA, Andrew M: Thrombin regulation in mother and fetus during pregnancy. Semin Thromb Hemost. 1992, 18 (1): 81-90. 10.1055\/s-2007-1002413.","journal-title":"Semin Thromb Hemost"},{"issue":"2","key":"4005_CR60","doi-asserted-by":"publisher","first-page":"197","DOI":"10.1530\/rep.0.1210197","volume":"121","author":"HN Jabbour","year":"2001","unstructured":"Jabbour HN, Critchley HO: Potential roles of decidual prolactin in early pregnancy. Reproduction. 2001, 121 (2): 197-205. 10.1530\/rep.0.1210197.","journal-title":"Reproduction"},{"issue":"2","key":"4005_CR61","first-page":"235","volume":"6","author":"RS Randhawa","year":"2008","unstructured":"Randhawa RS: The insulin-like growth factor system and fetal growth restrictionn. Pediatr Endocrinol Rev. 2008, 6 (2): 235-240.","journal-title":"Pediatr Endocrinol Rev"},{"issue":"Pt 20","key":"4005_CR62","doi-asserted-by":"publisher","first-page":"5023","DOI":"10.1113\/jphysiol.2008.157313","volume":"586","author":"PM Coan","year":"2008","unstructured":"Coan PM, Fowden AL, Constancia M, Ferguson-Smith AC, Burton GJ, Sibley CP: Disproportional effects of Igf2 knockout on placental morphology and diffusional exchange characteristics in the mouse. J Physiol. 2008, 586 (Pt 20): 5023-5032.","journal-title":"J Physiol"},{"issue":"3","key":"4005_CR63","doi-asserted-by":"publisher","first-page":"259","DOI":"10.1089\/109065703322537304","volume":"7","author":"S Prager","year":"2003","unstructured":"Prager S, Wollmann HA, Mergenthaler S, Mavany M, Eggermann K, Ranke MB, Eggermann T: Characterization of genomic variants in CSH1 and GH2, two candidate genes for Silver-Russell syndrome in 17q24-q25. Genet Test. 2003, 7 (3): 259-263. 10.1089\/109065703322537304.","journal-title":"Genet Test"},{"issue":"12","key":"4005_CR64","doi-asserted-by":"publisher","first-page":"3360","DOI":"10.1093\/humrep\/dei261","volume":"20","author":"K Rull","year":"2005","unstructured":"Rull K, Laan M: Expression of beta-subunit of HCG genes during normal and failed pregnancy. Hum Reprod. 2005, 20 (12): 3360-3368. 10.1093\/humrep\/dei261.","journal-title":"Hum Reprod"},{"issue":"10","key":"4005_CR65","doi-asserted-by":"crossref","first-page":"1474","DOI":"10.1093\/oxfordjournals.humrep.a137597","volume":"7","author":"DJ Henderson","year":"1992","unstructured":"Henderson DJ, Bennett PR, Moore GE: Expression of human chorionic gonadotrophin alpha and beta subunits is depressed in trophoblast from pregnancies with early embryonic failure. Hum Reprod. 1992, 7 (10): 1474-1478.","journal-title":"Hum Reprod"},{"key":"4005_CR66","doi-asserted-by":"crossref","unstructured":"Hunt JS, Langat DK, McIntire RH, Morales PJ: The role of HLA-G in human pregnancy. Reprod Biol Endocrinol. 2006, S10-4 Suppl 1","DOI":"10.1186\/1477-7827-4-S1-S10"},{"issue":"7","key":"4005_CR67","doi-asserted-by":"publisher","first-page":"681","DOI":"10.1096\/fj.04-2078rev","volume":"19","author":"JS Hunt","year":"2005","unstructured":"Hunt JS, Petroff MG, McIntire RH, Ober C: HLA-G and immune tolerance in pregnancy. FASEB J. 2005, 19 (7): 681-693. 10.1096\/fj.04-2078rev.","journal-title":"FASEB J"},{"issue":"1","key":"4005_CR68","doi-asserted-by":"publisher","first-page":"49","DOI":"10.1093\/molehr\/gan071","volume":"15","author":"N Izumi-Yoneda","year":"2009","unstructured":"Izumi-Yoneda N, Toda A, Okabe M, Koike C, Takashima S, Yoshida T, Konishi I, Saito S, Nikaido T: Alpha 1 antitrypsin activity is decreased in human amnion in premature rupture of the fetal membranes. Mol Hum Reprod. 2009, 15 (1): 49-57. 10.1093\/molehr\/gan071.","journal-title":"Mol Hum Reprod"},{"key":"4005_CR69","doi-asserted-by":"crossref","first-page":"88","DOI":"10.22203\/eCM.v015a07","volume":"15","author":"H Niknejad","year":"2008","unstructured":"Niknejad H, Peirovi H, Jorjani M, Ahmadiani A, Ghanavi J, Seifalian AM: Properties of the amniotic membrane for potential use in tissue engineering. Eur Cell Mater. 2008, 15: 88-99.","journal-title":"Eur Cell Mater"},{"issue":"4","key":"4005_CR70","doi-asserted-by":"publisher","first-page":"307","DOI":"10.1093\/humupd\/2.4.307","volume":"2","author":"TD Burrows","year":"1996","unstructured":"Burrows TD, King A, Loke YW: Trophoblast migration during human placental implantation. Hum Reprod Update. 1996, 2 (4): 307-321. 10.1093\/humupd\/2.4.307.","journal-title":"Hum Reprod Update"},{"issue":"3","key":"4005_CR71","doi-asserted-by":"publisher","first-page":"169","DOI":"10.1038\/35043051","volume":"1","author":"J Massague","year":"2000","unstructured":"Massague J: How cells read TGF-beta signals. Nat Rev Mol Cell Biol. 2000, 1 (3): 169-178.","journal-title":"Nat Rev Mol Cell Biol"},{"issue":"5","key":"4005_CR72","doi-asserted-by":"publisher","first-page":"495","DOI":"10.4161\/cc.5.5.2497","volume":"5","author":"BH Fryer","year":"2006","unstructured":"Fryer BH, Simon MC: Hypoxia, HIF and the placenta. Cell Cycle. 2006, 5 (5): 495-498. 10.4161\/cc.5.5.2497.","journal-title":"Cell Cycle"},{"issue":"7","key":"4005_CR73","doi-asserted-by":"publisher","first-page":"1619","DOI":"10.1242\/dev.01037","volume":"131","author":"E Poschl","year":"2004","unstructured":"Poschl E, Schlotzer-Schrehardt U, Brachvogel B, Saito K, Ninomiya Y, Mayer U: Collagen IV is essential for basement membrane stability but dispensable for initiation of its assembly during early development. Development. 2004, 131 (7): 1619-1628. 10.1242\/dev.01037.","journal-title":"Development"},{"issue":"2","key":"4005_CR74","doi-asserted-by":"publisher","first-page":"225","DOI":"10.1113\/jphysiol.1955.sp005301","volume":"128","author":"ML Harkness","year":"1955","unstructured":"Harkness ML, Harkness RD: The growth of collagen in the foetus, placenta and foetal membranes of the rat. J Physiol. 1955, 128 (2): 225-234.","journal-title":"J Physiol"},{"issue":"7","key":"4005_CR75","doi-asserted-by":"publisher","first-page":"2837","DOI":"10.1073\/pnas.1012834108","volume":"108","author":"S Shen","year":"2011","unstructured":"Shen S, Lin L, Cai JJ, Jiang P, Kenkel EJ, Stroik MR, Sato S, Davidson BL, Xing Y: Widespread establishment and regulatory impact of Alu exons in human genes. Proc Natl Acad Sci USA. 2011, 108 (7): 2837-2842. 10.1073\/pnas.1012834108.","journal-title":"Proc Natl Acad Sci USA"},{"issue":"3","key":"4005_CR76","doi-asserted-by":"publisher","first-page":"R25","DOI":"10.1186\/gb-2009-10-3-r25","volume":"10","author":"B Langmead","year":"2009","unstructured":"Langmead B, Trapnell C, Pop M, Salzberg SL: Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 2009, 10 (3): R25-10.1186\/gb-2009-10-3-r25.","journal-title":"Genome Biol"},{"issue":"1","key":"4005_CR77","doi-asserted-by":"publisher","first-page":"44","DOI":"10.1038\/nprot.2008.211","volume":"4","author":"DW Huang","year":"2009","unstructured":"Huang DW, Sherman BT, Lempicki RA: Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc. 2009, 4 (1): 44-57.","journal-title":"Nat Protoc"},{"issue":"6","key":"4005_CR78","doi-asserted-by":"publisher","first-page":"1084","DOI":"10.1093\/hmg\/ddq553","volume":"20","author":"ZX Lu","year":"2011","unstructured":"Lu ZX, Jiang P, Cai JJ, Xing Y: Context-dependent robustness to 5' splice site polymorphisms in human populations. Hum Mol Genet. 2011, 20 (6): 1084-1096. 10.1093\/hmg\/ddq553.","journal-title":"Hum Mol Genet"},{"issue":"2","key":"4005_CR79","doi-asserted-by":"publisher","first-page":"233","DOI":"10.1038\/72708","volume":"18","author":"M Schuelke","year":"2000","unstructured":"Schuelke M: An economic method for the fluorescent labeling of PCR fragments. Nat Biotechnol. 2000, 18 (2): 233-234. 10.1038\/72708.","journal-title":"Nat Biotechnol"},{"issue":"4","key":"4005_CR80","doi-asserted-by":"publisher","first-page":"402","DOI":"10.1006\/meth.2001.1262","volume":"25","author":"KJ Livak","year":"2001","unstructured":"Livak KJ, Schmittgen TD: Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. Methods. 2001, 25 (4): 402-408. 10.1006\/meth.2001.1262.","journal-title":"Methods"},{"issue":"3","key":"4005_CR81","doi-asserted-by":"publisher","first-page":"431","DOI":"10.1093\/bioinformatics\/btq675","volume":"27","author":"ME Smoot","year":"2010","unstructured":"Smoot ME, Ono K, Ruscheinski J, Wang P-L, Ideker T: Cytoscape 2.8: new features for data integration and network visualization. Bioinformatics. 2010, 27 (3): 431-432.","journal-title":"Bioinformatics"},{"issue":"24","key":"4005_CR82","doi-asserted-by":"publisher","first-page":"3106","DOI":"10.1093\/bioinformatics\/btl533","volume":"22","author":"J Yoon","year":"2006","unstructured":"Yoon J, Blumer A, Lee K: An algorithm for modularity analysis of directed and weighted biological networks based on edge-betweenness centrality. Bioinformatics. 2006, 22 (24): 3106-3108. 10.1093\/bioinformatics\/btl533.","journal-title":"Bioinformatics"}],"container-title":["BMC Genomics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/link.springer.com\/content\/pdf\/10.1186\/1471-2164-13-115.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2021,9,1]],"date-time":"2021-09-01T19:15:53Z","timestamp":1630523753000},"score":1,"resource":{"primary":{"URL":"https:\/\/bmcgenomics.biomedcentral.com\/articles\/10.1186\/1471-2164-13-115"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2012,3,27]]},"references-count":82,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2012,12]]}},"alternative-id":["4005"],"URL":"https:\/\/doi.org\/10.1186\/1471-2164-13-115","relation":{},"ISSN":["1471-2164"],"issn-type":[{"value":"1471-2164","type":"electronic"}],"subject":[],"published":{"date-parts":[[2012,3,27]]},"assertion":[{"value":"2 December 2011","order":1,"name":"received","label":"Received","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"27 March 2012","order":2,"name":"accepted","label":"Accepted","group":{"name":"ArticleHistory","label":"Article History"}},{"value":"27 March 2012","order":3,"name":"first_online","label":"First Online","group":{"name":"ArticleHistory","label":"Article History"}}],"article-number":"115"}}