Publications

2023

Kaiser A, Gatto A, Hanson KJ, Zhao RL, Raj N, Ozawa MG, Seoane JA, Bieging-Rolett KT, Wang M, Li, I, Trope WL, Liou DZ, Shrager JB, Plevritis SK, Newman AM, Van Rechem C and Attardi LD. P53 governs an AT1 differentiation programme in lung cancer suppression. Nature (2023), 619, 851-59.

2022

Ji F, Van Rechem C, Whetstine JR and Sadreyev R. Computational workflow for integrative analyses of DNA replication timing, epigenomic, and transcriptomic data. STAR Protocols (2022), 3, 101827.

Zhao M, Danneskiold-Samsøe NB, Ulicna L, Nguyen Q, Voilquin L, Lee DE, White JP, Jiang Z, Cuthbert N, Paramasivam S, Bielczyk-Maczynska E, Van Rechem C and Svensson KJ. Phosphoproteomic mapping reveals distinct signaling actions and activation of muscle protein synthesis by Isthmin-1. eLife (2022), 11:e80014.

Ulicna L, Kimmey SC, Weber CM, Allard GM, Wang A, Bui N, Bendall SC, Crabtree GR, Bean GR and Van Rechem C. The interaction of SWI/SNF with the ribosome regulates translation and confers sensitivity to translation pathway inhibitors in cancers with complex perturbations. Cancer Research (2022), 82, 2829-37.

Whetstine JR and Van Rechem C. A cell sorting-based protocol for cell-cycle small scale ChIP-sequencing. STAR Protocols (2022), 3, 101243.

Whetstine JR and Van Rechem C. Protocol to isolate cells in four stages of S phase for high resolution replication-timing sequencing. STAR Protocols (2022), 3, 101209.

Nakatani T, Lin J, Ettinger A, Pontsbry J, Tokoro M, Altamirano-Pacheco L, Fiorentino J, Mahammadov E, Van Rechem C, Chakraborty D, Ruiz-Morales ER, Arguello Pascualli PY, Scialdone A, Yamagata K, Whetstine JR, Sadrayev RI and Torres-Padilla ME. DNA replication fork speed underlies cell fate changes and promotes reprogramming. Nature Genetics (2022), 54, 318.

2021

Van Rechem C*, Ji F*, Chakraborty D*, Black JC, Sadrayev RI and Whetstine JR. Collective regulation of chromatin modifications predicts replication timing during cell cycle. Cell Reports (2021), 37, 109799.  *These authors contributed equally to this manuscript.

Rajasekaran S, Siddiqui J, Rakijas S, Nicolay B, Lin C, Khan E, Patel R, Morris R, Wyler E, Boukhali M, Balasubramanyam J, Kumar RR, Van Rechem C, Vogel C, Elchuri SV, Landthaler M, Obermayer B, Haas W, Dyson N and Miles W. Integrated multi-omics analysis of RB-loss identifies widespread cellular programming and synthetic weaknesses. Communications Biology (2021), 4, 977.

2020

Van Rechem C*, Ji F*, Mishra S, Chakraborty D, Murphy SE, Dillingham ME, Sadrayev RI and Whetstine JR. The lysine demethylase KDM4A controls the cell-cycle expression of replicative canonical histone genes. BBA – Gene Regulatory Mechanisms (2020), 1863.  *These authors contributed equally to this manuscript.

Clarke TL, Tang R, Chakraborty D, Van Rechem C, Ji F, Mishra S, Ma A, Kaniskan HU, Jin J, Lawrence MS, Sadreyev RI and Whetstine JR. Histone Lysine Methylation Dynamics Control EGFR DNA Copy Number Amplification. Cancer Discovery (2020), 10, 306-25.

2019

Etchegaray JP, Zhong L, Li C, Henriques T, Ablondi E, Nakadai T, Van Rechem C, Ferrer C, Ross KN, Choi JE, Samarakkody A, Ji F, Chang A, Sadreyev RI, Ramaswamy S, Nechaev S, Whetstine JR, Roeder RG, Adelman K, Goren A, Mostoslavsky R. The Histone Deacetylase SIRT6 Restrains Transcription Elongation vis Promoter-Proximal Pausing. Molecular Cell (2019), 75, 683-99.

Liu S*, Hausmann S*, Carlson SM, Fuentes ME, Francis JW, Pillai R, Lofgren SM, Hulea L, Tandoc K, Lu J, Li A, Nguyen ND, Caporicci M, Kim MP, Maitra A, Wang H, Wistuba II, Porco JA, Bassik MC, Elias JE, Song J, Topisirovic I, Van Rechem C, Mazur PK^#, Gozani O^#. METTL13 Methylation of eEF1A Increases Translational Output to Promote Tumorigenesis. Cell (2019), 176, 491-504. *These authors contributed equally to this manuscript. ^#Lead Contacts.

2018

Mishra S, Van Rechem C, Pal S, Clarke T, Chakraborty D, Mahan S, Black JC, Lawrence MS, Daniels DL and Whetstine JR. Histone Demethylase and Methyltransferase Cross Talk Regulates Site-Specific DNA Rereplication and Amplification. Cell (2018), 174, 803-17.

2017

Guarner A, Morris R, Korenjak M, Boukhali M, Zappia MP, Van Rechem C, Whetstine JR, Ramaswamy S, Zou L, Frolov MV, Haas W and Dyson NJ. E2F/DP Prevents Cell-Cycle Progression in Endocycling Fat Body Cells by Suppressing dATM Expression. Dev Cell (2017), 43, 689-703.

2015

Black JC, Atabakhsh E, Kim J, Biette KM, Van Rechem C, Ladd B, Burrowes Pd, Donado C, Mattoo H, Kleinstiver BP, Song B, Andriani G, Joung JK, Iliopoulos O, Montagna C, Pilliai S, Getz G and Whetstine JR. Hypoxia Drives Site-Specific Copy Gain and Drug Resistant Gene Expression. Genes and Development (2015), 29, 1018-31.

Van Rechem C, Black JC, Greninger P, Zhao Y, Donado C, Burrowes Pd, Ladd B, Christiani DC, Benes CH and Whetstine JR. A Coding Single Nucleotide Polymorphism in Lysine Demethylase KDM4A Associates with Increased Sensitivity to mTOR Inhibitors. Cancer Discovery (2015), 5, 245-54.

Van Rechem C, Black JC, Boukhali M, Aryee MJ, Graslund S, Haas W, Benes CH and Whetstine JR. Lysine Demethylase KDM4A Associates with Translation Machinery and Regulates Protein Synthesis. Cancer Discovery (2015), 5, 255-63.

2013

Black JC*, Manning AL*, Van Rechem C*, Kim J*, Ladd B, Cho J, Pineda CM, Murphy N, Daniela DL, Montagna C, Lewis PW, Glass K, Allis CD, Dyson NJ, Getz G and Whetstine JR. KDM4A Lysine Demethylase Induces Site-Specific Copy Gain and Rereplication of Regions Amplifies in Tumors. Cell (2013), 154, 541-55. *These authors contributed equally to this manuscript.

Dehennaut V, Loison I, Boulay G, Van Rechem C and Leprince D. Identification of P21 (CIP1/WAF1) as a direct target gene of HIC1 (Hypermethylated In Cancer 1). BBRC (2013), 430, 49-53.

2012

Boulay G, Dubuissez M, Van Rechem C, Forget A, Helin K, Ayrault O and Leprince D. Hypermethylated in Cancer 1 (HIC1) recruits Polycomb Repressive Complex 2 (PRC2) to a subset of its target genes through interaction with human Polycomb-Like (hPLC) proteins. JBC (2012), 287, 10509-24.

Boulay G, Malaquin N, Loison I, Foveau B, Van Rechem C, Rood BR, Pourtier A and Leprince D. Loss of Hypermethylated In Cancer 1 (HIC1) in breast cancer cells contributes to setress induced migration and invasion through b-2 adrenergic receptor (ADRB2) misregulation. JBC (2012), 287, 5379-89.

Foveau B, Boulay G, Pinte S, Van Rechem C, Rood BR and Leprince D. Receptor tyrosine kinase EPHA2 is a direct target-gene of HIC1 (Hypermethylated In Cancer 1). JBC (2012), 287, 566-78.

2011

Van Rechem C, Black JC, Abbas T, Allen A, Rinehart CA, Yuan GC, Dutta A and Whetstine JR. The SKP1-Cul1-F-box and Leucine-rich Repeat Protein 4 (SCF-FbxL4) Ubiquitin Ligase Regulates Lysine Demathylase 4A (KDM4A)/Jumonji Domain-containing 2A (JMJD2A) Protein. JBC (2011), 286, 30462-70.

2010

Black JC, Allen A*, Van Rechem C*, Forbes E*, Longworth M, Tschop K, Walsh R, Dyson N and Whetstine JR. Conserved antagonism between JMJD2A/KDM4A and HP1g during cell cycle. Mol Cell (2010), 40, 736-48. *These authors contributed equally to this manuscript.

Van Rechem C, Boulay G, Pinte S, Stankovic-Valentin N, Guerardel C amd Leprince D. Differential regulation of HIC1 target genes by CtBP and NuRD, via an Acetylation/SUMOylation switch, in quiescent versus proliferating cells. Mol Cell Biol (2010), 30, 4045-59.

2009

Van Rechem C, Boulay G and Leprince D. HIC1 interacts with a specific subunit of SWI/SNF complexes, ARID1A/BAF250A. BBRC (2009), 385, 586-90.

Van Rechem C*, Rood BR*, Touka M*, Pinte S*, Jenal M, Guerardel C, Ramsey K, Monte D, Begue A, Tschan M, Stephan DA and Leprince D. Scavenger Chemokine (CXC motif) Receptor 7 (CXCR7) is a direct target gene of HIC1 (Hypermethylated in Cancer 1). JBC (2009), 284, 20927-35. *These authors contributed equally to this manuscript.