NBAtlas: A harmonized single-cell transcriptomic reference atlas of human neuroblastoma tumors

Authors: Bonine, Noah ^{1, 2, 3}, Zanzani, Vittorio ^{1, 2, 3, 4, 8, 11}, Van Hemelryk, Annelies ^{1, 3, 4, 5, 11}, Vanneste, Bavo ^{4, 5}, Zwicker, Christian ^{4, 5}, Thoné, Tinne ^{4, 5}, Roelandt, Sofie ^{1, 2, 3}, Bekaert, Sarah-Lee ^{1, 3}, Koster, Jan ⁶, Janoueix-Lerosey, Isabelle ⁷, Thirant, Cécile ⁷, Van Haver, Stéphane ^{1, 3, 9}, Roberts, Stephen S. ¹⁰, Mus, Liselot M. ^{1, 3}, De Wilde, Bram ^{1, 3}, Van Roy, Nadine ^{1, 3}, Everaert, Celine ^{1, 2, 3}, Speleman, Frank ^{1, 3}, Vermeirssen, Vanessa ^{1, 3, 4, 8}, Scott, Charlotte L. ^{4, 5, 12, ∗}, De Preter, Katleen ^{1, 2, 3, 12, 13, ∗∗}

Source: In Cell Reports 22 October 2024 43(10)

Human iPSC modeling recapitulates in vivo sympathoadrenal development and reveals an aberrant developmental subpopulation in familial neuroblastoma

Authors: Van Haver, Stéphane ^{1, 2}, Fan, Yujie ^{3, 4, 9}, Bekaert, Sarah-Lee ^{1, 2}, Everaert, Celine ^{1, 2}, Van Loocke, Wouter ^{1, 2}, Zanzani, Vittorio ^{1, 11, 12}, Deschildre, Joke ^{1, 11, 12}, Maestre, Inés Fernandez ^{13, 14}, Amaro, Adrianna ⁵, Vermeirssen, Vanessa ^{1, 11, 12}, De Preter, Katleen ^{1, 2}, Zhou, Ting ¹⁰, Kentsis, Alex ^{5, 6, 7, 8}, Studer, Lorenz ^{3, 4}, Speleman, Frank ^{1, 2, 15}, Roberts, Stephen S. ^{5, 15, 16, ∗}

Source: In iScience 19 January 2024 27(1)

The feasibility of using liquid biopsies as a complementary assay for copy number aberration profiling in routinely collected paediatric cancer patient samples

Authors: Van Paemel, Ruben, Vandeputte, Charlotte, Raman, Lennart, Van Thorre, Jolien, Willems, Leen, Van Dorpe, Jo, Van Der Linden, Malaïka, De Wilde, Jilke, De Koker, Andries, Menten, Björn, Devalck, Christine, Vicha, Ales, Grega, Marek, Schleiermacher, Gudrun, Iddir, Yasmine, Chicard, Mathieu, van Zogchel, Lieke, Stutterheim, Janine, Lak, Nathalie S.M., Tytgat, G.A.M., Laureys, Geneviève, Speleman, Frank, De Wilde, Bram, Lammens, Tim, De Preter, Katleen, Van Roy, Nadine

Source: European journal of cancer. 160:12-23

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100151124023.0x000001&indx=1&recIds=ETOCvdc_100151124023.0x000001

Recurrent chromosomal imbalances provide selective advantage to human embryonic stem cells under enhanced replicative stress conditions

Authors: Mus, Liselot M., Van Haver, Stéphane, Popovic, Mina, Trypsteen, Wim, Lefever, Steve, Zeltner, Nadja, Ogando, Yudelca, Jacobs, Eva Z., Denecker, Geertrui, Sanders, Ellen, Van Neste, Christophe, Vanhauwaert, Suzanne, Decaesteker, Bieke, Deforce, Dieter, Van Nieuwerburgh, Filip, Mestdagh, Pieter, Vandesompele, Jo, Menten, Björn, De Preter, Katleen, Studer, Lorenz, Heindryckx, Björn, Durinck, Kaat, Roberts, Stephen, Speleman, Frank

Source: Genes, chromosomes & cancer. 60(4):272-281

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100116944220.0x000001&indx=1&recIds=ETOCvdc_100116944220.0x000001

Large-scale circular RNA deregulation in T-ALL: unlocking unique ectopic expression of molecular subtypes

Authors: Buratin, Alessia, Paganin, Maddalena, Gaffo, Enrico, Dal Molin, Anna, Roels, Juliette, Germano, Giuseppe, Siddi, Maria Teresa, Serafin, Valentina, De Decker, Matthias, Gachet, Stéphanie, Durinck, Kaat, Speleman, Frank, Taghon, Tom, te Kronnie, Geertruij, Van Vlierberghe, Pieter, Bortoluzzi, Stefania

Source: In Blood Advances 8 December 2020 4(23):5902-5914

Accelerating drug development for neuroblastoma: Summary of the Second Neuroblastoma Drug Development Strategy forum from Innovative Therapies for Children with Cancer and International Society of Paediatric Oncology Europe Neuroblastoma

Authors: Moreno, Lucas, Barone, Giuseppe, DuBois, Steven G., Molenaar, Jan, Fischer, Matthias, Schulte, Johannes, Eggert, Angelika, Schleiermacher, Gudrun, Speleman, Frank, Chesler, Louis, Geoerger, Birgit, Hogarty, Michael D., Irwin, Meredith S., Bird, Nick, Blanchard, Guy B., Buckland, Sean, Caron, Hubert, Davis, Susan, De Wilde, Bram, Deubzer, Hedwig E., Dolman, Emmy, Eilers, Martin, George, Rani E., George, Sally, Jaroslav, Štěrba, Maris, John M., Marshall, Lynley, Merchant, Melinda, Mortimer, Peter, Owens, Cormac, Philpott, Anna, Poon, Evon, Shay, Jerry W., Tonelli, Roberto, Valteau-Couanet, Dominique, Vassal, Gilles, Park, Julie R., Pearson, Andrew D.J.

Source: In European Journal of Cancer September 2020 136:52-68

The pitfalls and promise of liquid biopsies for diagnosing and treating solid tumors in children: a review

Authors: Van Paemel, Ruben, Vlug, Roos, De Preter, Katleen, Van Roy, Nadine, Speleman, Frank, Willems, Leen, Lammens, Tim, Laureys, Geneviève, Schleiermacher, Gudrun, Tytgat, Godelieve A. M., Astrahantseff, Kathy, Deubzer, Hedwig, De Wilde, Bram

Source: European journal of pediatrics. 179(2):191-202

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100125928196.0x000001&indx=1&recIds=ETOCvdc_100125928196.0x000001

A mechanistic classification of clinical phenotypes in neuroblastoma

Authors: Ackermann, Sandra, Cartolano, Maria, Hero, Barbara, Welte, Anne, Kahlert, Yvonne, Roderwieser, Andrea, Bartenhagen, Christoph, Walter, Esther, Gecht, Judith, Kerschke, Laura, Volland, Ruth, Menon, Roopika, Heuckmann, Johannes M., Gartlgruber, Moritz, Hartlieb, Sabine, Henrich, Kai-Oliver, Okonechnikov, Konstantin, Altmüller, Janine, Nürnberg, Peter, Lefever, Steve, de Wilde, Bram, Sand, Frederik, Ikram, Fakhera, Rosswog, Carolina, Fischer, Janina, Theissen, Jessica, Hertwig, Falk, Singhi, Aatur D., Simon, Thorsten, Vogel, Wenzel, Perner, Sven, Krug, Barbara, Schmidt, Matthias, Rahmann, Sven, Achter, Viktor, Lang, Ulrich, Vokuhl, Christian, Ortmann, Monika, Büttner, Reinhard, Eggert, Angelika, Speleman, Frank, O’Sullivan, Roderick J., Thomas, Roman K., Berthold, Frank, Vandesompele, Jo, Schramm, Alexander, Westermann, Frank, Schulte, Johannes H., Peifer, Martin, Fischer, Matthias

Source: Science, 2018 Dec 01. 362(6419), 1165-1170.

Access URL: https://www.jstor.org/stable/26569196

Integrative analysis identifies lincRNAs up- and downstream of neuroblastoma driver genes

Authors: Rombaut, Dries, Chiu, Hua-Sheng, Decaesteker, Bieke, Everaert, Celine, Yigit, Nurten, Peltier, Agathe, Janoueix, Isabelle, Bartenhagen, Christoph, Fischer, Matthias, Roberts, Stephen, D'Haene, Nicky, Preter, Katleen, Speleman, Frank, Denecker, Geertrui, Sumazin, Pavel, Vandesompele, Jo, Lefever, Steve, Mestdagh, Pieter

Source: Scientific reports. 9(1):1-13

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100129228875.0x000001&indx=1&recIds=ETOCvdc_100129228875.0x000001

ALK positively regulates MYCN activity through repression of HBP1 expression

Authors: Claeys, Shana, Denecker, Geertrui, Durinck, Kaat, Decaesteker, Bieke, Mus, Liselot M., Loontiens, Siebe, Vanhauwaert, Suzanne, Althoff, Kristina, Wigerup, Caroline, Bexell, Daniel, Dolman, Emmy, Henrich, Kai-Oliver, Wehrmann, Lea, Westerhout, Ellen M., Demoulin, Jean-Baptiste, Kumps, Candy, Van Maerken, Tom, Laureys, Genevieve, Van Neste, Christophe, De Wilde, Bram, De Wever, Olivier, Westermann, Frank, Versteeg, Rogier, Molenaar, Jan J., Påhlman, Sven, Schulte, Johannes H., De Preter, Katleen, Speleman, Frank

Source: Oncogene. 38(15):2690-2705

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100193269537.0x000001&indx=1&recIds=ETOCvdc_100193269537.0x000001

Purification of high-quality RNA from a small number of fluorescence activated cell sorted zebrafish cells for RNA sequencing purposes

Authors: Loontiens, Siebe, Depestel, Lisa, Vanhauwaert, Suzanne, Dewyn, Givani, Gistelinck, Charlotte, Verboom, Karen, Van Loocke, Wouter, Matthijssens, Filip, Willaert, Andy, Vandesompele, Jo, Speleman, Frank, Durinck, Kaat

Source: BMC genomics. 20(1):1-16

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100186559144.0x000001&indx=1&recIds=ETOCvdc_100186559144.0x000001

Expressed repetitive elements are broadly applicable reference targets for normalization of reverse transcription-qPCR data in mice

Authors: Renard, Marjolijn, Vanhauwaert, Suzanne, Vanhomwegen, Marine, Rihani, Ali, Vandamme, Niels, Goossens, Steven, Berx, Geert, Vlierberghe, Pieter, Haigh, Jody, Decaesteker, Bieke, Laere, Jolien, Lambertz, Irina, Speleman, Frank, Vandesompele, Jo, Willaert, Andy

Source: Scientific reports. 8(1):1-9

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100140048518.0x000001&indx=1&recIds=ETOCvdc_100140048518.0x000001

Epigenetic regulation of neuroblastoma development

Authors: Durinck, Kaat, Speleman, Frank

Source: Cell and tissue research. 372(2):309-324

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100124158396.0x000001&indx=1&recIds=ETOCvdc_100124158396.0x000001

Promoter-associated proteins of EPAS1 identified by enChIP-MS – A putative role of HDX as a negative regulator

Authors: Hamidian, Arash, Vaapil, Marica, von Stedingk, Kristoffer, Fujita, Toshitsugu, Persson, Camilla U., Eriksson, Pontus, Veerla, Srinivas, De Preter, Katleen, Speleman, Frank, Fujii, Hodaka, Påhlman, Sven, Mohlin, Sofie

Source: Biochemical and biophysical research communications. 499(2):291-298

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100085322482.0x000001&indx=1&recIds=ETOCvdc_100085322482.0x000001

TBX2 is a neuroblastoma core regulatory circuitry component enhancing MYCN/FOXM1 reactivation of DREAM targets

Authors: Decaesteker, Bieke, Denecker, Geertrui, Van Neste, Christophe, Dolman, Emmy, Van Loocke, Wouter, Gartlgruber, Moritz, Nunes, Carolina, De Vloed, Fanny, Depuydt, Pauline, Verboom, Karen, Rombaut, Dries, Loontiens, Siebe, De Wyn, Jolien, Kholosy, Waleed, Koopmans, Bianca, Essing, Anke, Herrmann, Carl, Dreidax, Daniel, Durinck, Kaat, Deforce, Dieter, Nieuwerburgh, Filip, Henssen, Anton, Versteeg, Rogier, Boeva, Valentina, Schleiermacher, Gudrun, van Nes, Johan, Mestdagh, Pieter, Vanhauwaert, Suzanne, Schulte, Johannes, Westermann, Frank, Molenaar, Jan, De Preter, Katleen, Speleman, Frank

Source: Nature communications. 9(1):1-17

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100190653099.0x000001&indx=1&recIds=ETOCvdc_100190653099.0x000001

In silico discovery of a FOXM1 driven embryonal signaling pathway in therapy resistant neuroblastoma tumors

Authors: Vanhauwaert, Suzanne, Decaesteker, Bieke, Brouwer, Sara, Leonelli, Carina, Durinck, Kaat, Mestdagh, Pieter, Vandesompele, Jo, Sermon, Karen, Denecker, Geertrui, Neste, Christophe, Speleman, Frank, De Preter, Katleen

Source: Scientific reports. 8(1):1-11

Availability: http://explore.bl.uk/primo_library/libweb/action/display.do?tabs=detailsTab&gathStatTab=true&ct=display&fn=search&doc=ETOCvdc_100153486636.0x000001&indx=1&recIds=ETOCvdc_100153486636.0x000001

Glutathione biosynthesis is upregulated at the initiation of MYCN-driven neuroblastoma tumorigenesis

Authors: Carter, Daniel R., Sutton, Selina K., Pajic, Marina, Murray, Jayne, Sekyere, Eric O., Fletcher, Jamie, Beckers, Anneleen, De Preter, Katleen, Speleman, Frank, George, Rani E., Haber, Michelle, Norris, Murray D., Cheung, Belamy B., Marshall, Glenn M.

Source: In Molecular Oncology June 2016 10(6):866-878

LIN28B overexpression defines a novel fetal-like subgroup of juvenile myelomonocytic leukemia

Authors: Helsmoortel, Hetty H. ^*, Bresolin, Silvia ^*, Lammens, Tim, Cavé, Hélène, Noellke, Peter, Caye, Aurélie, Ghazavi, Farzaneh, de Vries, Andrica, Hasle, Henrik, Labarque, Veerle, Masetti, Riccardo, Stary, Jan, van den Heuvel-Eibrink, Marry M., Philippé, Jan, Van Roy, Nadine, Benoit, Yves, Speleman, Frank, Niemeyer, Charlotte, Flotho, Christian, Basso, Giuseppe, te Kronnie, Geertruy, Van Vlierberghe, Pieter, De Moerloose, Barbara ^*

Source: In Blood 3 March 2016 127(9):1163-1172

Preclinical exploration of the DNA damage response pathway using the interactive neuroblastoma cell line explorer CLEAN.

Authors: Gabre, Jonatan L, Merseburger, Peter, Claeys, Arne, Siaw, Joachim, Bekaert, Sarah-Lee, Speleman, Frank, Hallberg, Bengt, Palmer, Ruth H, Van den Eynden, Jimmy

Source: NAR Cancer; Mar2024, Vol. 6 Issue 1, p1-8, 8p

HTSplotter: An end-to-end data processing, analysis and visualisation tool for chemical and genetic in vitro perturbation screening.

Authors: Nunes, Carolina, Anckaert, Jasper, De Vloed, Fanny, De Wyn, Jolien, Durinck, Kaat, Vandesompele, Jo, Speleman, Frank, Vermeirssen, Vanessa

Source: PLoS ONE; 1/5/2024, Vol. 19 Issue 1, p1-19, 19p

Subject Terms: DOSE-effect relationship in pharmacology, ELECTRONIC data processing, DRUG synergism, PYTHON programming language, HIGH throughput screening (Drug development), PDF (Computer file format), TEXT files