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Items: 31

1.

Single-cell analysis of bone marrow-derived CD34+ cells from children with sickle cell disease and thalassemia.

Hua P, Roy N, de la Fuente J, Wang G, Thongjuea S, Clark K, Roy A, Psaila B, Ashley N, Harrington Y, Nerlov C, Watt SM, Roberts I, Davies JOJ.

Blood. 2019 Dec 5;134(23):2111-2115. doi: 10.1182/blood.2019002301. No abstract available.

PMID:
31697810
2.

Identification of two distinct pathways of human myelopoiesis.

Drissen R, Thongjuea S, Theilgaard-Mönch K, Nerlov C.

Sci Immunol. 2019 May 24;4(35). pii: eaau7148. doi: 10.1126/sciimmunol.aau7148.

PMID:
31126997
3.

Cell-intrinsic depletion of Aml1-ETO-expressing pre-leukemic hematopoietic stem cells by K-Ras activating mutation.

Di Genua C, Norfo R, Rodriguez-Meira A, Wen WX, Drissen R, Booth CAG, Povinelli B, Repapi E, Gray N, Carrelha J, Kettyle LM, Jamieson L, Neo WH, Thongjuea S, Nerlov C, Mead AJ.

Haematologica. 2019 Nov;104(11):2215-2224. doi: 10.3324/haematol.2018.205351. Epub 2019 Apr 11.

4.

Unravelling Intratumoral Heterogeneity through High-Sensitivity Single-Cell Mutational Analysis and Parallel RNA Sequencing.

Rodriguez-Meira A, Buck G, Clark SA, Povinelli BJ, Alcolea V, Louka E, McGowan S, Hamblin A, Sousos N, Barkas N, Giustacchini A, Psaila B, Jacobsen SEW, Thongjuea S, Mead AJ.

Mol Cell. 2019 Mar 21;73(6):1292-1305.e8. doi: 10.1016/j.molcel.2019.01.009. Epub 2019 Feb 12.

5.

SCL/TAL1 cooperates with Polycomb RYBP-PRC1 to suppress alternative lineages in blood-fated cells.

Chagraoui H, Kristiansen MS, Ruiz JP, Serra-Barros A, Richter J, Hall-Ponselé E, Gray N, Waithe D, Clark K, Hublitz P, Repapi E, Otto G, Sopp P, Taylor S, Thongjuea S, Vyas P, Porcher C.

Nat Commun. 2018 Dec 18;9(1):5375. doi: 10.1038/s41467-018-07787-6.

6.

From Pioneer to Repressor: Bimodal foxd3 Activity Dynamically Remodels Neural Crest Regulatory Landscape In Vivo.

Lukoseviciute M, Gavriouchkina D, Williams RM, Hochgreb-Hagele T, Senanayake U, Chong-Morrison V, Thongjuea S, Repapi E, Mead A, Sauka-Spengler T.

Dev Cell. 2018 Dec 3;47(5):608-628.e6. doi: 10.1016/j.devcel.2018.11.009.

7.

Niche-mediated depletion of the normal hematopoietic stem cell reservoir by Flt3-ITD-induced myeloproliferation.

Mead AJ, Neo WH, Barkas N, Matsuoka S, Giustacchini A, Facchini R, Thongjuea S, Jamieson L, Booth CAG, Fordham N, Di Genua C, Atkinson D, Chowdhury O, Repapi E, Gray N, Kharazi S, Clark SA, Bouriez T, Woll P, Suda T, Nerlov C, Jacobsen SEW.

J Exp Med. 2017 Jul 3;214(7):2005-2021. doi: 10.1084/jem.20161418. Epub 2017 Jun 21.

8.

Single-cell transcriptomics uncovers distinct molecular signatures of stem cells in chronic myeloid leukemia.

Giustacchini A, Thongjuea S, Barkas N, Woll PS, Povinelli BJ, Booth CAG, Sopp P, Norfo R, Rodriguez-Meira A, Ashley N, Jamieson L, Vyas P, Anderson K, Segerstolpe Å, Qian H, Olsson-Strömberg U, Mustjoki S, Sandberg R, Jacobsen SEW, Mead AJ.

Nat Med. 2017 Jun;23(6):692-702. doi: 10.1038/nm.4336. Epub 2017 May 15.

PMID:
28504724
9.

Initial seeding of the embryonic thymus by immune-restricted lympho-myeloid progenitors.

Luis TC, Luc S, Mizukami T, Boukarabila H, Thongjuea S, Woll PS, Azzoni E, Giustacchini A, Lutteropp M, Bouriez-Jones T, Vaidya H, Mead AJ, Atkinson D, Böiers C, Carrelha J, Macaulay IC, Patient R, Geissmann F, Nerlov C, Sandberg R, de Bruijn MFTR, Blackburn CC, Godin I, Jacobsen SEW.

Nat Immunol. 2016 Dec;17(12):1424-1435. doi: 10.1038/ni.3576. Epub 2016 Oct 3.

10.

Distinct myeloid progenitor-differentiation pathways identified through single-cell RNA sequencing.

Drissen R, Buza-Vidas N, Woll P, Thongjuea S, Gambardella A, Giustacchini A, Mancini E, Zriwil A, Lutteropp M, Grover A, Mead A, Sitnicka E, Jacobsen SEW, Nerlov C.

Nat Immunol. 2016 Jun;17(6):666-676. doi: 10.1038/ni.3412. Epub 2016 Apr 4.

11.

Single-cell RNA sequencing reveals molecular and functional platelet bias of aged haematopoietic stem cells.

Grover A, Sanjuan-Pla A, Thongjuea S, Carrelha J, Giustacchini A, Gambardella A, Macaulay I, Mancini E, Luis TC, Mead A, Jacobsen SE, Nerlov C.

Nat Commun. 2016 Mar 24;7:11075. doi: 10.1038/ncomms11075.

12.

A dynamic niche provides Kit ligand in a stage-specific manner to the earliest thymocyte progenitors.

Buono M, Facchini R, Matsuoka S, Thongjuea S, Waithe D, Luis TC, Giustacchini A, Besmer P, Mead AJ, Jacobsen SE, Nerlov C.

Nat Cell Biol. 2016 Feb;18(2):157-67. doi: 10.1038/ncb3299. Epub 2016 Jan 18.

13.

Control of developmentally primed erythroid genes by combinatorial co-repressor actions.

Stadhouders R, Cico A, Stephen T, Thongjuea S, Kolovos P, Baymaz HI, Yu X, Demmers J, Bezstarosti K, Maas A, Barroca V, Kockx C, Ozgur Z, van Ijcken W, Arcangeli ML, Andrieu-Soler C, Lenhard B, Grosveld F, Soler E.

Nat Commun. 2015 Nov 23;6:8893. doi: 10.1038/ncomms9893.

14.

Myelodysplastic syndromes are propagated by rare and distinct human cancer stem cells in vivo.

Woll PS, Kjällquist U, Chowdhury O, Doolittle H, Wedge DC, Thongjuea S, Erlandsson R, Ngara M, Anderson K, Deng Q, Mead AJ, Stenson L, Giustacchini A, Duarte S, Giannoulatou E, Taylor S, Karimi M, Scharenberg C, Mortera-Blanco T, Macaulay IC, Clark SA, Dybedal I, Josefsen D, Fenaux P, Hokland P, Holm MS, Cazzola M, Malcovati L, Tauro S, Bowen D, Boultwood J, Pellagatti A, Pimanda JE, Unnikrishnan A, Vyas P, Göhring G, Schlegelberger B, Tobiasson M, Kvalheim G, Constantinescu SN, Nerlov C, Nilsson L, Campbell PJ, Sandberg R, Papaemmanuil E, Hellström-Lindberg E, Linnarsson S, Jacobsen SE.

Cancer Cell. 2014 Jun 16;25(6):794-808. doi: 10.1016/j.ccr.2014.03.036. Epub 2014 May 15. Erratum in: Cancer Cell. 2014 Jun 16;25(6):861. Cancer Cell. 2015 Apr 13;27(4):603-5.

15.

HBS1L-MYB intergenic variants modulate fetal hemoglobin via long-range MYB enhancers.

Stadhouders R, Aktuna S, Thongjuea S, Aghajanirefah A, Pourfarzad F, van Ijcken W, Lenhard B, Rooks H, Best S, Menzel S, Grosveld F, Thein SL, Soler E.

J Clin Invest. 2014 Apr;124(4):1699-710. doi: 10.1172/JCI71520. Epub 2014 Mar 10.

16.

Platelet-biased stem cells reside at the apex of the haematopoietic stem-cell hierarchy.

Sanjuan-Pla A, Macaulay IC, Jensen CT, Woll PS, Luis TC, Mead A, Moore S, Carella C, Matsuoka S, Bouriez Jones T, Chowdhury O, Stenson L, Lutteropp M, Green JC, Facchini R, Boukarabila H, Grover A, Gambardella A, Thongjuea S, Carrelha J, Tarrant P, Atkinson D, Clark SA, Nerlov C, Jacobsen SE.

Nature. 2013 Oct 10;502(7470):232-6. doi: 10.1038/nature12495. Epub 2013 Aug 11.

PMID:
23934107
17.

Locus-specific proteomics by TChP: targeted chromatin purification.

Pourfarzad F, Aghajanirefah A, de Boer E, Ten Have S, Bryn van Dijk T, Kheradmandkia S, Stadhouders R, Thongjuea S, Soler E, Gillemans N, von Lindern M, Demmers J, Philipsen S, Grosveld F.

Cell Rep. 2013 Aug 15;4(3):589-600. doi: 10.1016/j.celrep.2013.07.004. Epub 2013 Aug 1.

18.

r3Cseq: an R/Bioconductor package for the discovery of long-range genomic interactions from chromosome conformation capture and next-generation sequencing data.

Thongjuea S, Stadhouders R, Grosveld FG, Soler E, Lenhard B.

Nucleic Acids Res. 2013 Jul;41(13):e132. doi: 10.1093/nar/gkt373. Epub 2013 May 13.

19.

In vivo live imaging of RNA polymerase II transcription factories in primary cells.

Ghamari A, van de Corput MP, Thongjuea S, van Cappellen WA, van Ijcken W, van Haren J, Soler E, Eick D, Lenhard B, Grosveld FG.

Genes Dev. 2013 Apr 1;27(7):767-77. doi: 10.1101/gad.216200.113. Erratum in: Genes Dev. 2013 Jun 15;27(12):1434. Genes Dev. 2013 May 15;27(10):1216.

20.

Genome-wide analysis shows that Ldb1 controls essential hematopoietic genes/pathways in mouse early development and reveals novel players in hematopoiesis.

Mylona A, Andrieu-Soler C, Thongjuea S, Martella A, Soler E, Jorna R, Hou J, Kockx C, van Ijcken W, Lenhard B, Grosveld F.

Blood. 2013 Apr 11;121(15):2902-13. doi: 10.1182/blood-2012-11-467654. Epub 2013 Feb 6.

PMID:
23390196
21.

Genome-wide DNA methylation profiling of non-small cell lung carcinomas.

Carvalho RH, Haberle V, Hou J, van Gent T, Thongjuea S, van Ijcken W, Kockx C, Brouwer R, Rijkers E, Sieuwerts A, Foekens J, van Vroonhoven M, Aerts J, Grosveld F, Lenhard B, Philipsen S.

Epigenetics Chromatin. 2012 Jun 22;5(1):9. doi: 10.1186/1756-8935-5-9.

22.

DNA-binding factor CTCF and long-range gene interactions in V(D)J recombination and oncogene activation.

Ribeiro de Almeida C, Stadhouders R, Thongjuea S, Soler E, Hendriks RW.

Blood. 2012 Jun 28;119(26):6209-18. doi: 10.1182/blood-2012-03-402586. Epub 2012 Apr 26. Review.

PMID:
22538856
23.

Dynamic long-range chromatin interactions control Myb proto-oncogene transcription during erythroid development.

Stadhouders R, Thongjuea S, Andrieu-Soler C, Palstra RJ, Bryne JC, van den Heuvel A, Stevens M, de Boer E, Kockx C, van der Sloot A, van den Hout M, van Ijcken W, Eick D, Lenhard B, Grosveld F, Soler E.

EMBO J. 2012 Feb 15;31(4):986-99. doi: 10.1038/emboj.2011.450. Epub 2011 Dec 13.

24.

The DNA-binding protein CTCF limits proximal Vκ recombination and restricts κ enhancer interactions to the immunoglobulin κ light chain locus.

Ribeiro de Almeida C, Stadhouders R, de Bruijn MJ, Bergen IM, Thongjuea S, Lenhard B, van Ijcken W, Grosveld F, Galjart N, Soler E, Hendriks RW.

Immunity. 2011 Oct 28;35(4):501-13. doi: 10.1016/j.immuni.2011.07.014.

25.

A systems approach to analyze transcription factors in mammalian cells.

Soler E, Andrieu-Soler C, Boer Ed, Bryne JC, Thongjuea S, Rijkers E, Demmers J, van IJcken W, Grosveld F.

Methods. 2011 Feb;53(2):151-62. doi: 10.1016/j.ymeth.2010.08.002. Epub 2010 Aug 10. Review.

PMID:
20705139
26.

The genome-wide dynamics of the binding of Ldb1 complexes during erythroid differentiation.

Soler E, Andrieu-Soler C, de Boer E, Bryne JC, Thongjuea S, Stadhouders R, Palstra RJ, Stevens M, Kockx C, van Ijcken W, Hou J, Steinhoff C, Rijkers E, Lenhard B, Grosveld F.

Genes Dev. 2010 Feb 1;24(3):277-89. doi: 10.1101/gad.551810. Erratum in: Genes Dev. 2010 Mar 15;24(6):623.

27.

JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles.

Portales-Casamar E, Thongjuea S, Kwon AT, Arenillas D, Zhao X, Valen E, Yusuf D, Lenhard B, Wasserman WW, Sandelin A.

Nucleic Acids Res. 2010 Jan;38(Database issue):D105-10. doi: 10.1093/nar/gkp950. Epub 2009 Nov 11.

28.

RiceGeneThresher: a web-based application for mining genes underlying QTL in rice genome.

Thongjuea S, Ruanjaichon V, Bruskiewich R, Vanavichit A.

Nucleic Acids Res. 2009 Jan;37(Database issue):D996-1000. doi: 10.1093/nar/gkn638. Epub 2008 Sep 27.

29.

The generation challenge programme platform: semantic standards and workbench for crop science.

Bruskiewich R, Senger M, Davenport G, Ruiz M, Rouard M, Hazekamp T, Takeya M, Doi K, Satoh K, Costa M, Simon R, Balaji J, Akintunde A, Mauleon R, Wanchana S, Shah T, Anacleto M, Portugal A, Ulat VJ, Thongjuea S, Braak K, Ritter S, Dereeper A, Skofic M, Rojas E, Martins N, Pappas G, Alamban R, Almodiel R, Barboza LH, Detras J, Manansala K, Mendoza MJ, Morales J, Peralta B, Valerio R, Zhang Y, Gregorio S, Hermocilla J, Echavez M, Yap JM, Farmer A, Schiltz G, Lee J, Casstevens T, Jaiswal P, Meintjes A, Wilkinson M, Good B, Wagner J, Morris J, Marshall D, Collins A, Kikuchi S, Metz T, McLaren G, van Hintum T.

Int J Plant Genomics. 2008;2008:369601. doi: 10.1155/2008/369601.

30.

The Generation Challenge Programme comparative plant stress-responsive gene catalogue.

Wanchana S, Thongjuea S, Ulat VJ, Anacleto M, Mauleon R, Conte M, Rouard M, Ruiz M, Krishnamurthy N, Sjolander K, van Hintum T, Bruskiewich RM.

Nucleic Acids Res. 2008 Jan;36(Database issue):D943-6. Epub 2007 Oct 11.

31.

Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis with Arabidopsis thaliana.

Rice Annotation Project, Itoh T, Tanaka T, Barrero RA, Yamasaki C, Fujii Y, Hilton PB, Antonio BA, Aono H, Apweiler R, Bruskiewich R, Bureau T, Burr F, Costa de Oliveira A, Fuks G, Habara T, Haberer G, Han B, Harada E, Hiraki AT, Hirochika H, Hoen D, Hokari H, Hosokawa S, Hsing YI, Ikawa H, Ikeo K, Imanishi T, Ito Y, Jaiswal P, Kanno M, Kawahara Y, Kawamura T, Kawashima H, Khurana JP, Kikuchi S, Komatsu S, Koyanagi KO, Kubooka H, Lieberherr D, Lin YC, Lonsdale D, Matsumoto T, Matsuya A, McCombie WR, Messing J, Miyao A, Mulder N, Nagamura Y, Nam J, Namiki N, Numa H, Nurimoto S, O'Donovan C, Ohyanagi H, Okido T, Oota S, Osato N, Palmer LE, Quetier F, Raghuvanshi S, Saichi N, Sakai H, Sakai Y, Sakata K, Sakurai T, Sato F, Sato Y, Schoof H, Seki M, Shibata M, Shimizu Y, Shinozaki K, Shinso Y, Singh NK, Smith-White B, Takeda J, Tanino M, Tatusova T, Thongjuea S, Todokoro F, Tsugane M, Tyagi AK, Vanavichit A, Wang A, Wing RA, Yamaguchi K, Yamamoto M, Yamamoto N, Yu Y, Zhang H, Zhao Q, Higo K, Burr B, Gojobori T, Sasaki T.

Genome Res. 2007 Feb;17(2):175-83. Epub 2007 Jan 8.

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