BCL3-rearrangements in B-cell lymphoid neoplasms occur in two breakpoint clusters associated with different diseases.

Carbo-Meix A, Guijarro F, Wang L, Grau M, Royo R, Frigola G, Playa-Albinyana H, Buhler MM, Clot G, Duran-Ferrer M, Lu J, Granada I, Baptista MJ, Navarro JT, Espinet B, Puiggros A, Tapia G, Bandiera L, De Canal G, Bonoldi E, Climent F, Ribera-Cortada I, Fernandez-Caballero M, De la Banda E, Do Nascimento J, Pineda A, Vela D, Rozman M, Aymerich M, Syrykh C, Brousset P, Perera M, Yanez L, Ortin JX, Tuset E, Zenz T, Cook JR, Swerdlow SH, Martin-Subero JI, Colomer D, Matutes E, Bea S, Costa D, Nadeu F, Campo E

Haematologica, 2023

doi:10.3324/haematol.2023.283209.

The changing career paths of PhDs and postdocs trained at EMBL.

Lu J, Velten B, Klaus B, Ramm M, Huber W, Coulthard-Graf R

eLife, 2023

doi:10.7554/elife.78706.

Negative feedback regulation of MAPK signaling is an important driver of chronic lymphocytic leukemia progression.

Ecker V, Brandmeier L, Stumpf M, Giansanti P, Moreira AV, Pfeuffer L, Fens MHAM, Lu J, Kuster B, Engleitner T, Heidegger S, Rad R, Ringshausen I, Zenz T, Wendtner CM, Müschen M, Jellusova J, Ruland J, Buchner M

Cell reports, 2023

doi:10.1016/j.celrep.2023.113017.

Ex vivo drug response profiling for response and outcome prediction in hematologic malignancies: the prospective non-interventional SMARTrial.

Liebers N, Bruch PM, Terzer T, Hernandez-Hernandez M, Paramasivam N, Fitzgerald D, Altmann H, Roider T, Kolb C, Knoll M, Lenze A, Platzbecker U, Röllig C, Baldus C, Serve H, Bornhäuser M, Hübschmann D, Müller-Tidow C, Stölzel F, Huber W, Benner A, Zenz T, Lu J, Dietrich S

Nature cancer, 2023

doi:10.1038/s43018-023-00645-5.

IGLV3-21R110 mutation has prognostic value in patients with treatment-naive chronic lymphocytic leukemia.

Nadeu F, Syrykh C, Pons-Brun B, Russiñol N, Playa-Albinyana H, Baumann TS, Duran-Ferrer M, Kulis M, Carbó-Meix A, Mozas P, Alcoceba M, González M, Navarro-Bailón A, Colado E, Payer Á, Aymerich M, Terol MJ, Lu J, Knisbacher BA, Hahn CK, Ruiz-Gaspà S, Enjuanes A, Wu CJ, Getz G, Zenz T, López-Guillermo A, Martin-Subero JI, Colomer D, Delgado J, Campo E

Blood advances, 2023

doi:10.1182/bloodadvances.2023010132.

Comparing the value of mono- versus coculture for high-throughput compound screening in hematological malignancies.

Herbst SA, Kim V, Roider T, Schitter EC, Bruch PM, Liebers N, Kolb C, Knoll M, Lu J, Dreger P, Müller-Tidow C, Zenz T, Huber W, Dietrich S

Blood advances, 2023

doi:10.1182/bloodadvances.2022009652.

Subgroup-specific gene expression profiles and mixed epistasis in chronic lymphocytic leukemia.

Lütge A, Lu J, Hüllein J, Walther T, Sellner L, Wu B, Rosenquist R, Oakes CC, Dietrich S, Huber W, Zenz T

Haematologica, 2023

doi:10.3324/haematol.2022.281869.

Proteogenomics refines the molecular classification of chronic lymphocytic leukemia.

Herbst SA, Vesterlund M, Helmboldt AJ, Jafari R, Siavelis I, Stahl M, Schitter EC, Liebers N, Brinkmann BJ, Czernilofsky F, Roider T, Bruch PM, Iskar M, Kittai A, Huang Y, Lu J, Richter S, Mermelekas G, Umer HM, Knoll M, Kolb C, Lenze A, Cao X, Österholm C, Wahnschaffe L, Herling C, Scheinost S, Ganzinger M, Mansouri L, Kriegsmann K, Kriegsmann M, Anders S, Zapatka M, Del Poeta G, Zucchetto A, Bomben R, Gattei V, Dreger P, Woyach J, Herling M, Müller-Tidow C, Rosenquist R, Stilgenbauer S, Zenz T, Huber W, Tausch E, Lehtiö J, Dietrich S

Nature communications, 2022

doi:10.1038/s41467-022-33385-8.

Viral transduction of primary human lymphoma B cells reveals mechanisms of NOTCH-mediated immune escape.

Mangolini M, Maiques-Diaz A, Charalampopoulou S, Gerhard-Hartmann E, Bloehdorn J, Moore A, Giachetti G, Lu J, Roamio Franklin VN, Chilamakuri CSR, Moutsopoulos I, Rosenwald A, Stilgenbauer S, Zenz T, Mohorianu I, D'Santos C, Deaglio S, Hodson DJ, Martin-Subero JI, Ringshausen I

Nature communications, 2022

doi:10.1038/s41467-022-33739-2.

Inferring tumor-specific cancer dependencies through integrating ex vivo drug response assays and drug-protein profiling.

Batzilla A, Lu J, Kivioja J, Putzker K, Lewis J, Zenz T, Huber W

PLoS computational biology, 2022

doi:10.1371/journal.pcbi.1010438.

A gene expression assay based on chronic lymphocytic leukemia activation in the microenvironment to predict progression.

Abrisqueta P, Medina-Gil D, Villacampa G, Lu J, Alcoceba M, Carabia J, Boix J, Tazón-Vega B, Iacoboni G, Bobillo S, Marín-Niebla A, González M, Zenz T, Crespo M, Bosch F

Blood advances, 2022

doi:10.1182/bloodadvances.2022007508.

Drug-microenvironment perturbations reveal resistance mechanisms and prognostic subgroups in CLL.

Bruch PM, Giles HA, Kolb C, Herbst SA, Becirovic T, Roider T, Lu J, Scheinost S, Wagner L, Huellein J, Berest I, Kriegsmann M, Kriegsmann K, Zgorzelski C, Dreger P, Zaugg JB, Müller-Tidow C, Zenz T, Huber W, Dietrich S

Molecular systems biology, 2022

doi:10.15252/msb.202110855.

Multi-omics reveals clinically relevant proliferative drive associated with mTOR-MYC-OXPHOS activity in chronic lymphocytic leukemia.

Lu J, Cannizzaro E, Meier-Abt F, Scheinost S, Bruch PM, Giles HA, Lütge A, Hüllein J, Wagner L, Giacopelli B, Nadeu F, Delgado J, Campo E, Mangolini M, Ringshausen I, Böttcher M, Mougiakakos D, Jacobs A, Bodenmiller B, Dietrich S, Oakes CC, Zenz T, Huber W

Nature cancer, 2021

doi:10.1038/s43018-021-00216-6.

CXCR4 hyperactivation cooperates with TCL1 in CLL development and aggressiveness.

Lewis R, Maurer HC, Singh N, Gonzalez-Menendez I, Wirth M, Schick M, Zhang L, Isaakidis K, Scherger AK, Schulze V, Lu J, Zenz T, Steiger K, Rad R, Quintanilla-Martinez L, Espeli M, Balabanian K, Keller U, Habringer S

Leukemia, 2021

doi:10.1038/s41375-021-01376-1.

The protein landscape of chronic lymphocytic leukemia (CLL).

Meier-Abt F, Lu J, Cannizzaro E, Pohly MF, Kummer S, Pfammatter S, Kunz L, Collins BC, Nadeu F, Lee KS, Xue P, Gwerder M, Roiss M, Hüllein J, Scheinost S, Dietrich S, Campo E, Huber W, Aebersold R, Zenz T

Blood, 2021

doi:10.1182/blood.2020009741.

The balance between the intronic miR-342 and its host gene Evl determines hematopoietic cell fate decision.

Herbst F, Lang TJL, Eckert ESP, Wünsche P, Wurm AA, Kindinger T, Laaber K, Hemmati S, Hotz-Wagenblatt A, Zavidij O, Paruzynski A, Lu J, von Kalle C, Zenz T, Klein C, Schmidt M, Ball CR, Glimm H

Leukemia, 2021

doi:10.1038/s41375-021-01267-5.

SAMHD1 mutations in mantle cell lymphoma are recurrent and confer in vitro resistance to nucleoside analogues.

Bühler MM, Lu J, Scheinost S, Nadeu F, Roos-Weil D, Hensel M, Thavayogarajah T, Moch H, Manz MG, Haralambieva E, Marques Maggio E, Beà S, Giné E, Campo E, Bernard OA, Huber W, Zenz T

Leukemia research, 2021

doi:10.1016/j.leukres.2021.106608.

Control of PD-L1 expression in CLL-cells by stromal triggering of the Notch-c-Myc-EZH2 oncogenic signaling axis.

Böttcher M, Bruns H, Völkl S, Lu J, Chartomatsidou E, Papakonstantinou N, Mentz K, Büttner-Herold M, Zenz T, Herling M, Huber W, Ghia P, Stamatopoulos K, Mackensen A, Mougiakakos D

Journal for immunotherapy of cancer, 2021

doi:10.1136/jitc-2020-001889.

The proliferative history shapes the DNA methylome of B-cell tumors and predicts clinical outcome.

Duran-Ferrer M, Clot G, Nadeu F, Beekman R, Baumann T, Nordlund J, Marincevic-Zuniga Y, Lönnerholm G, Rivas-Delgado A, Martin S, Ordoñez R, Castellano G, Kulis M, Queirós A, Seung-Tae L, Wiemels J, Royo R, Puiggrós M, Lu J, Gine E, Beà S, Jares P, Agirre X, Prosper F, López-Otín C, Puente XS, Oakes CC, Zenz T, Delgado J, López-Guillermo A, Campo E, Martin-Subero JI

Nature cancer, 2020

doi:10.1038/s43018-020-00131-2.

IGLV3-21R110 identifies an aggressive biological subtype of chronic lymphocytic leukemia with intermediate epigenetics.

Nadeu F, Royo R, Clot G, Duran-Ferrer M, Navarro A, Martin S, Lu J, Zenz T, Baumann TS, Jares P, Puente XS, Martin-Subero I, Delgado J, Campo E

Blood, 2020

doi:10.1182/blood.2020008311.

IgCaller for reconstructing immunoglobulin gene rearrangements and oncogenic translocations from whole-genome sequencing in lymphoid neoplasms.

Nadeu F, Mas-de-Les-Valls R, Navarro A, Royo R, Martín S, Villamor N, Suárez-Cisneros H, Mares R, Lu J, Enjuanes A, Rivas-Delgado A, Aymerich M, Baumann T, Colomer D, Delgado J, Zenz T, Morin RD, Campbell PJ, Puente XS, Maura F, Beà S, Campo E

Nature communications, 2020

doi:10.1038/s41467-020-17095-7.

Reduction of liver metastasis stiffness improves response to bevacizumab in metastatic colorectal cancer.

Shen Y, Wang X, Lu J, Salfenmoser M, Wirsik NM, Schleussner N, Imle A, Freire Valls A, Radhakrishnan P, Liang J, Wang G, Muley T, Schneider M, Ruiz de Almodovar C, Diz-Muñoz A, Schmidt T

Cancer cell, 2020

doi:10.1016/j.ccell.2020.05.005.

Identification of two DNA methylation subtypes of Waldenström's macroglobulinemia with plasma and memory B cell features.

Roos-Weil D, Giacopelli B, Armand M, Della Valle V, Ghamlouch H, Decaudin C, Metzner M, Lu J, Le Garff-Tavernier M, Leblond V, Vyas P, Zenz T, Nguyen-Khac F, Bernard OA, Oakes CC

Blood, 2020

doi:10.1182/blood.2020005081.

Survey of ex vivo drug combination effects in chronic lymphocytic leukemia reveals synergistic drug effects and genetic dependencies.

Lukas M, Velten B, Sellner L, Tomska K, Hüellein J, Walther T, Wagner L, Muley C, Wu B, Oleś M, Dietrich S, Jethwa A, Bohnenberger H, Lu J, Huber W, Zenz T

Leukemia, 2020

doi:10.1038/s41375-020-0846-5.

Targeting the N terminus of eIF4AI for inhibition of its catalytic recycling.

Jiang C, Tang Y, Ding L, Tan R, Li X, Lu J, Jiang J, Cui Z, Tang Z, Li W, Cao Z, Schneider-Poetsch T, Jiang W, Luo C, Ding Y, Liu J, Dang Y,

Cell chemical biology, 2019

doi:10.1016/j.chembiol.2019.07.010.

Developmental subtypes assessed by DNA methylation-iPLEX forecast the natural history of chronic lymphocytic leukemia.

Giacopelli B, Zhao Q, Ruppert AS, Agyeman A, Weigel C, Wu YZ, Gerber MM, Rabe KG, Larson MC, Lu J, Blachly JS, Rogers KA, Wierda WG, Brown JR, Rai KR, Rassenti LZ, Keating M, Zenz T, Kipps TJ, Kay NE, Shanafelt TD, Coombes KR, Abruzzo LV, Byrd JC, Woyach JA, Oakes CC

Blood, 2019

doi:10.1182/blood.2019000490.

MDM4 is targeted by 1q gain and drives disease in Burkitt lymphoma.

Hüllein J, Słabicki M, Rosolowski M, Jethwa A, Habringer S, Tomska K, Kurilov R, Lu J, Scheinost S, Wagener R, Huang Z, Lukas M, Yavorska O, Helfrich H, Scholtysik R, Tedesco D, Bonneau K, Klapper W, Küppers R, Stilgenbauer S, Pott C, Löffler M, Burkhardt B, Hummel M, Trümper LH, Zapatka M, Brors B, Kreuz M, Siebert R, Huber W, Keller U, Zenz T

Cancer research, 2019

doi:10.1158/0008-5472.CAN-18-3438.

Energy metabolism is co-determined by genetic variants in chronic lymphocytic leukemia and influences drug sensitivity.

Lu J, Böttcher M, Walther T, Mougiakakos D, Zenz T, Huber W

Haematologica, 2019

doi:10.3324/haematol.2018.203067.

TRRAP is essential for regulating the accumulation of mutant and wild-type p53 in lymphoma.

Jethwa A, Słabicki M, Hüllein J, Jentzsch M, Dalal V, Rabe S, Wagner L, Walther T, Klapper W, Bohnenberger H, Rettel M, Lu J, Smits AH, Stein F, Savitski MM, Huber W, Aylon Y, Oren M, Zenz T

Blood, 2018

doi:10.1182/blood-2017-09-806679.

Drug-perturbation-based stratification of blood cancer.

Dietrich S, Oleś M, Lu J, Sellner L, Anders S, Velten B, Wu B, Hüllein J, da Silva Liberio M, Walther T, Wagner L, Rabe S, Ghidelli-Disse S, Bantscheff M, Oleś AK, Słabicki M, Mock A, Oakes CC, Wang S, Oppermann S, Lukas M, Kim V, Sill M, Benner A, Jauch A, Sutton LA, Young E, Rosenquist R, Liu X, Jethwa A, Lee KS, Lewis J, Putzker K, Lutz C, Rossi D, Mokhir A, Oellerich T, Zirlik K, Herling M, Nguyen-Khac F, Plass C, Andersson E, Mustjoki S, von Kalle C, Ho AD, Hensel M, Dürig J, Ringshausen I, Zapatka M, Huber W, Zenz T

The Journal of clinical investigation, 2017

doi:10.1172/JCI93801.

A gating mechanism for Pi release governs the mRNA unwinding by eIF4AI during translation initiation.

Lu J, Jiang C, Li X, Jiang L, Li Z, Schneider-Poetsch T, Liu J, Yu K, Liu JO, Jiang H, Luo C, Dang Y

Nucleic acids research, 2015

doi:10.1093/nar/gkv1033.

Network modelling reveals the mechanism underlying colitis-associated colon cancer and identifies novel combinatorial anti-cancer targets.

Lu J, Zeng H, Liang Z, Chen L, Zhang L, Zhang H, Liu H, Jiang H, Shen B, Huang M, Geng M, Spiegel S, Luo C

Scientific reports, 2015

doi:10.1038/srep14739.

Inhibition of human copper trafficking by a small molecule significantly attenuates cancer cell proliferation.

Wang J, Luo C, Shan C, You Q, Lu J, Elf S, Zhou Y, Wen Y, Vinkenborg JL, Fan J, Kang H, Lin R, Han D, Xie Y, Karpus J, Chen S, Ouyang S, Luan C, Zhang N, Ding H, Merkx M, Liu H, Chen J, Jiang H, He C

Nature chemistry, 2015

doi:10.1038/nchem.2381.

Structural insight into substrate preference for TET-mediated oxidation.

Hu L, Lu J, Cheng J, Rao Q, Li Z, Hou H, Lou Z, Zhang L, Li W, Gong W, Liu M, Sun C, Yin X, Li J, Tan X, Wang P, Wang Y, Fang D, Cui Q, Yang P, He C, Jiang H, Luo C, Xu Y

Nature, 2015

doi:10.1038/nature15713.

Discovery and Optimization of Novel, Selective Histone Methyltransferase SET7 Inhibitors by Pharmacophore- and Docking-Based Virtual Screening.

Meng F, Cheng S, Ding H, Liu S, Liu Y, Zhu K, Chen S, Lu J, Xie Y, Li L, Liu R, Shi Z, Zhou Y, Liu YC, Zheng M, Jiang H, Lu W, Liu H, Luo C

Journal of medicinal chemistry, 2015

doi:10.1021/acs.jmedchem.5b01154.

FTY720 induces apoptosis of M2 subtype acute myeloid leukemia cells by targeting sphingolipid metabolism and increasing endogenous ceramide levels.

Chen L, Luo LF, Lu J, Li L, Liu YF, Wang J, Liu H, Song H, Jiang H, Chen SJ, Luo C, Li KK

PloS one, 2014

doi:10.1371/journal.pone.0103033.

Molecular-dynamics-simulation-driven design of a protease-responsive probe for in-vivo tumor imaging.

Jiang Y, Lu J, Wang Y, Zeng F, Wang H, Peng H, Huang M, Jiang H, Luo C, Huang Y

Advanced materials, 2014

doi:10.1002/adma.201403547.

Astemizole arrests the proliferation of cancer cells by disrupting the EZH2-EED interaction of polycomb repressive complex 2.

Kong X, Chen L, Jiao L, Jiang X, Lian F, Lu J, Zhu K, Du D, Liu J, Ding H, Zhang N, Shen J, Zheng M, Chen K, Liu X, Jiang H, Luo C

Journal of medicinal chemistry, 2014

doi:10.1021/jm501230c.

Active, phosphorylated fingolimod inhibits histone deacetylases and facilitates fear extinction memory.

Hait NC, Wise LE, Allegood JC, O'Brien M, Avni D, Reeves TM, Knapp PE, Lu J, Luo C, Miles MF, Milstien S, Lichtman AH, Spiegel S

Nature neuroscience, 2014

doi:10.1038/nn.3728.

Catalytic mechanism of histone acetyltransferase p300: from the proton transfer to acetylation reaction.

Zhang X, Ouyang S, Kong X, Liang Z, Lu J, Zhu K, Zhao D, Zheng M, Jiang H, Liu X, Marmorstein R, Luo C

The journal of physical chemistry. B, 2014

doi:10.1021/jp409778e.

Theoretical insights into catalytic mechanism of protein arginine methyltransferase 1.

Zhang R, Li X, Liang Z, Zhu K, Lu J, Kong X, Ouyang S, Li L, Zheng YG, Luo C

PloS one, 2013

doi:10.1371/journal.pone.0072424.

Application of epigenome-modifying small molecules in induced pluripotent stem cells.

Lu J, Kong X, Luo C, Li KK

Medicinal research reviews, 2013

doi:10.1002/med.21265.

Helix unfolding/refolding characterizes the functional dynamics of Staphylococcus aureus Clp protease.

Ye F, Zhang J, Liu H, Hilgenfeld R, Zhang R, Kong X, Li L, Lu J, Zhang X, Li D, Jiang H, Yang CG, Luo C

The Journal of biological chemistry, 2013

doi:10.1074/jbc.m113.452714.

A quantum mechanics/molecular mechanics study on the hydrolysis mechanism of New Delhi metallo-β-lactamase-1.

Zhu K, Lu J, Liang Z, Kong X, Ye F, Jin L, Geng H, Chen Y, Zheng M, Jiang H, Li JQ, Luo C

Journal of computer-aided molecular design, 2013

doi:10.1007/s10822-012-9630-6.

Structure-based computational study of the hydrolysis of New Delhi metallo-β-lactmase-1.

Zhu K, Lu J, Ye F, Jin L, Kong X, Liang Z, Chen Y, Yu K, Jiang H, Li JQ, Luo C

Biochemical and biophysical research communications, 2013

doi:10.1016/j.bbrc.2012.12.141.

Investigation of the acetylation mechanism by GCN5 histone acetyltransferase.

Jiang J, Lu J, Lu D, Liang Z, Li L, Ouyang S, Kong X, Jiang H, Shen B, Luo C

PloS one, 2012

doi:10.1371/journal.pone.0036660.

Development of a novel class of B-Raf(V600E)-selective inhibitors through virtual screening and hierarchical hit optimization.

Kong X, Qin J, Li Z, Vultur A, Tong L, Feng E, Rajan G, Liu S, Lu J, Liang Z, Zheng M, Zhu W, Jiang H, Herlyn M, Liu H, Marmorstein R, Luo C

Organic & biomolecular chemistry, 2012

doi:10.1039/c2ob26081f.

Computational drug discovery.

Ou-Yang SS, Lu JY, Kong XQ, Liang ZJ, Luo C, Jiang H

Acta pharmacologica Sinica, 2012

doi:10.1038/aps.2012.109.

Thymine DNA glycosylase specifically recognizes 5-carboxylcytosine-modified DNA.

Zhang L, Lu X, Lu J, Liang H, Dai Q, Xu GL, Luo C, Jiang H, He C

Nature chemical biology, 2012

doi:10.1038/nchembio.914.

Catalytic mechanism investigation of lysine-specific demethylase 1 (LSD1): a computational study.

Kong X, Ouyang S, Liang Z, Lu J, Chen L, Shen B, Li D, Zheng M, Li KK, Luo C, Jiang H

PloS one, 2011

doi:10.1371/journal.pone.0025444.