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Jiji Chen

Jiji Chen
Jiji Chen ,
Ph.D.
Staff Scientist
jiji.chen@nih.gov
Biography

Dr. Chen received his PhD in 2011 from Purdue University under Joseph Irudayaraj. His doctoral work utilized single molecule spectroscopy and time resolved techniques to study epigenetic modifications in single cells. He then joined the Transcription Imaging Consortium at the HHMI Janelia Research Campus to do his post-doctoral fellowship with Maxime Dahan and Robert Tjian. At Janelia, Dr. Chen co-developed the multifocus microscope – a widefield fluorescence microscope capable of imaging multiple focal planes simultaneously. He then combined multifocus microscopy with single molecule imaging to quantitatively track the interactions of transcription factors at endogenous binding elements in 3D in live cells.

Dr. Chen joined the NIH in 2016 as the Co-Operating Director of the Advanced Imaging and Microscopy Resource.

Publications
Altruistic feeding and cell-cell signaling during bacterial differentiation actively enhance phenotypic heterogeneity.
Updegrove TBDelerue TAnantharaman VCho HChan CNipper TChoo-Wosoba HJenkins LMZhang LSu YShroff HChen JBewley CAAravind LRamamurthi KS
Sci Adv
2024 Oct 18

A Type I Photosensitizer-Polymersome Boosts Reactive Oxygen Species Generation by Forcing H-Aggregation for Amplifying STING Immunotherapy.
Wang ZMa WYang ZKiesewetter DOWu YLang LZhang GNakuchima SChen JSu YHan SWu LGJin AJHuang W
J Am Chem Soc
2024 Oct 23

Convolutional neural network transformer (CNNT) for fluorescence microscopy image denoising with improved generalization and fast adaptation.
Rehman AZhovmer ASato RMukouyama YSChen JRissone APuertollano RLiu JVishwasrao HDShroff HCombs CAXue H
Sci Rep
2024 Aug 06

Modulation of biophysical properties of nucleocapsid protein in the mutant spectrum of SARS-CoV-2.
Nguyen AZhao HMyagmarsuren DSrinivasan SWu DChen JPiszczek GSchuck P
Elife
2024 Jun 28

Convolutional Neural Network Transformer (CNNT) for Fluorescence Microscopy image Denoising with Improved Generalization and Fast Adaptation.
Rehman AZhovmer ASato RMukoyama YChen JRissone APuertollano RVishwasrao HShroff HCombs CAXue H
ArXiv
2024 Apr 06

Altruistic feeding and cell-cell signaling during bacterial differentiation actively enhance phenotypic heterogeneity.
Updegrove TBDelerue TAnantharaman VCho HChan CNipper TChoo-Wosoba HJenkins LMZhang LSu YShroff HChen JBewley CAAravind LRamamurthi KS
bioRxiv
2024 Mar 27

Three-dimensional spatio-angular fluorescence microscopy with a polarized dual-view inverted selective-plane illumination microscope (pol-diSPIM).
Chandler TGuo MSu YChen JWu YLiu JAgashe AFischer RSMehta SBKumar ABaskin TIJamouillé VLiu HSwaminathan VNain AOldenbourg RRiviére PShroff H
bioRxiv
2024 Mar 12

Cell division machinery drives cell-specific gene activation during differentiation in .
Chareyre SLi XAnjuwon-Foster BRUpdegrove TBClifford SBrogan APSu YZhang LChen JShroff HRamamurthi KS
Proc Natl Acad Sci U S A
2024 Mar 26

Modulation of Biophysical Properties of Nucleocapsid Protein in the Mutant Spectrum of SARS-CoV-2.
Nguyen AZhao HMyagmarsuren DSrinivasan SWu DChen JPiszczek GSchuck P
bioRxiv
2024 Mar 22

Real-time imaging of drug-induced trapping of cellular topoisomerases and poly(ADP-ribose) polymerase 1 at the single-molecule level.
Sun YChen JPommier Y
Nucleic Acids Res
2023 Oct 13

Dendritic distribution of autophagosomes underlies pathway-selective induction of LTD.
Keary KMGu QHChen JLi Z
Cell Rep
2023 Aug 29

Targeting neddylation sensitizes colorectal cancer to topoisomerase I inhibitors by inactivating the DCAF13-CRL4 ubiquitin ligase complex.
Sun YBaechler SAZhang XKumar SFactor VMArakawa YChau CHOkamoto KParikh AWalker BSu YPChen JTing THuang SNBeck EItkin ZMcKnight CXie CRoper NNijhawan DFigg WDMeltzer PSYang JCThomas CJPommier Y
Nat Commun
2023 Jun 23

Targeting N-linked Glycosylation for the Therapy of Aggressive Lymphomas.
Scheich SChen JLiu JSchnütgen FEnssle JCCeribelli MThomas CJChoi JMorris VHsiao TNguyen HWang BBolomsky APhelan JDCorcoran SUrlaub HYoung RMHäupl BWright GWHuang DWJi YYu XXu WYang YZhao HMuppidi JPan KTOellerich TStaudt LM
Cancer Discov
2023 Aug 04

A conserved oligomerization domain in the disordered linker of coronavirus nucleocapsid proteins.
Zhao HWu DHassan SANguyen AChen JPiszczek GSchuck P
Sci Adv
2023 Apr 05

Three-dimensional structured illumination microscopy with enhanced axial resolution.
Li XWu YSu YRey-Suarez IMatthaeus CUpdegrove TBWei ZZhang LSasaki HLi YGuo MGiannini JPVishwasrao HDChen JLee SJShao LLiu HRamamurthi KSTaraska JWUpadhyaya ALa Riviere PShroff H
Nat Biotechnol
2023 Sep

Incorporating the image formation process into deep learning improves network performance.
Li YSu YGuo MHan XLiu JVishwasrao HDLi XChristensen RSengupta TMoyle MWRey-Suarez IChen JUpadhyaya AUsdin TBColón-Ramos DALiu HWu YShroff H
Nat Methods
2022 Nov

Plasticity in structure and assembly of SARS-CoV-2 nucleocapsid protein.
Zhao HNguyen AWu DLi YHassan SAChen JShroff HPiszczek GSchuck P
PNAS Nexus
2022 May

[Analysis of Pollution Characteristics and Sources of Rainfall Runoff from Roofs in the Central District of Beijing].
Xi YGuo JTao LTian YChen JJWu YXu SSJing HWLiu BX
Huan Jing Ke Xue
2022 Jun 08

The HIV-1 Viral Protease Is Activated during Assembly and Budding Prior to Particle Release.
Tabler COWegman SJChen JShroff HAlhusaini NTilton JC
J Virol
2022 May 11

Plasticity in structure and assembly of SARS-CoV-2 nucleocapsid protein.
Zhao HNguyen AWu DLi YHassan SAChen JShroff HPiszczek GSchuck P
bioRxiv
2022 Feb 09

Multiview confocal super-resolution microscopy.
Wu YHan XSu YGlidewell MDaniels JSLiu JSengupta TRey-Suarez IFischer RPatel ACombs CSun JWu XChristensen RSmith CBao LSun YDuncan LHChen JPommier YShi YBMurphy ERoy SUpadhyaya AColón-Ramos DLa Riviere PShroff H
Nature
2021 Dec

PARylation prevents the proteasomal degradation of topoisomerase I DNA-protein crosslinks and induces their deubiquitylation.
Sun YChen JHuang SNSu YPWang WAgama KSaha SJenkins LMPascal JMPommier Y
Nat Commun
2021 Aug 18

Three-dimensional residual channel attention networks denoise and sharpen fluorescence microscopy image volumes.
Chen JSasaki HLai HSu YLiu JWu YZhovmer ACombs CARey-Suarez IChang HYHuang CCLi XGuo MNizambad SUpadhyaya ALee SJLucas LAGShroff H
Nat Methods
2021 Jun

Semi-automated single-molecule microscopy screening of fast-dissociating specific antibodies directly from hybridoma cultures.
Miyoshi TZhang QMiyake TWatanabe SOhnishi HChen JVishwasrao HDChakraborty OBelyantseva IAPerrin BJShroff HFriedman TBOmori KWatanabe N
Cell Rep
2021 Feb 02

[Concentration and Carbon Isotope Composition of DOC and DIC in the Miyun Reservoir Watershed in Summer].
Chen JJGuo JXu SSTao LJing HW
Huan Jing Ke Xue
2020 Nov 08

Quantum Dot-Conjugated SARS-CoV-2 Spike Pseudo-Virions Enable Tracking of Angiotensin Converting Enzyme 2 Binding and Endocytosis.
Gorshkov KSusumu KChen JXu MPradhan MZhu WHu XBreger JCWolak MOh E
ACS Nano
2020 Sep 22

Rapid image deconvolution and multiview fusion for optical microscopy.
Guo MLi YSu YLambert TNogare DDMoyle MWDuncan LHIkegami RSantella ARey-Suarez IGreen DBeiriger AChen JVishwasrao HGanesan SPrince VWaters JCAnnunziata CMHafner MMohler WAChitnis ABUpadhyaya AUsdin TBBao ZColón-Ramos DLa Riviere PLiu HWu YShroff H
Nat Biotechnol
2020 Nov

Visualizing the translation and packaging of HIV-1 full-length RNA.
Chen JLiu YWu BNikolaitchik OAMohan PRChen JPathak VKHu WS
Proc Natl Acad Sci U S A
2020 Mar 17

Histone hyperacetylation disrupts core gene regulatory architecture in rhabdomyosarcoma.
Gryder BEPomella SSayers CWu XSSong YChiarella AMBagchi SChou HCSinniah RSWalton AWen XRota RHathaway NAZhao KChen JVakoc CRShern JFStanton BZKhan J
Nat Genet
2019 Dec

A 2-dimensional ratchet model describes assembly initiation of a specialized bacterial cell surface.
Peluso EAUpdegrove TBChen JShroff HRamamurthi KS
Proc Natl Acad Sci U S A
2019 Oct 22

In situ polymerization on nanoscale metal-organic frameworks for enhanced physiological stability and stimulus-responsive intracellular drug delivery.
Liu YGong CSDai YYang ZYu GLiu YZhang MLin LTang WZhou ZZhu GChen JJacobson OKiesewetter DOWang ZChen X
Biomaterials
2019 Oct

Gas chromatography-mass spectrometry based metabolomics profile of hippocampus and cerebellum in mice after chronic arsenic exposure.
Mo TTDai HDu HZhang RYChai KPAn YChen JJWang JKChen ZJChen CZJiang XJTang RWang LPTan QTang PMiao XYMeng PZhang LBCheng SQPeng BTu BJHan TLXia YYBaker PN
Environ Toxicol
2019 Feb

[Nitrous Oxide Production in Response to Oxygen in a Solar Greenhouse Vegetable Soil].
Chen JJSong HCao WCWang YRWang JG
Huan Jing Ke Xue
2018 Aug 08

Single-shot super-resolution total internal reflection fluorescence microscopy.
Guo MChandris PGiannini JPTrexler AJFischer RChen JVishwasrao HDRey-Suarez IWu YWu XWaterman CMPatterson GHUpadhyaya ATaraska JWShroff H
Nat Methods
2018 Jun

A RAS-CaMKKβ-AMPKα2 pathway promotes senescence by licensing post-translational activation of C/EBPβ through a novel 3'UTR mechanism.
Basu SKGonit MSalotti JChen JBhat AGorospe MViollet BClaffey KPJohnson PF
Oncogene
2018 Jun

Albumin/vaccine nanocomplexes that assemble in vivo for combination cancer immunotherapy.
Zhu GLynn GMJacobson OChen KLiu YZhang HMa YZhang FTian RNi QCheng SWang ZLu NYung BCWang ZLang LFu XJin AWeiss IDVishwasrao HNiu GShroff HKlinman DMSeder RAChen X
Nat Commun
2017 Dec 05

Intertwining DNA-RNA nanocapsules loaded with tumor neoantigens as synergistic nanovaccines for cancer immunotherapy.
Zhu GMei LVishwasrao HDJacobson OWang ZLiu YYung BCFu XJin ANiu GWang QZhang FShroff HChen X
Nat Commun
2017 Nov 14

Reflective imaging improves spatiotemporal resolution and collection efficiency in light sheet microscopy.
Wu YKumar ASmith CArdiel EChandris PChristensen RRey-Suarez IGuo MVishwasrao HDChen JTang JUpadhyaya ALa Riviere PJShroff H
Nat Commun
2017 Nov 13

DNA-RNA interactions are critical for chromosome condensation in .
Qian ZZhurkin VBAdhya S
Proc Natl Acad Sci U S A
2017 Nov 14

Myc Regulates Chromatin Decompaction and Nuclear Architecture during B Cell Activation.
Kieffer-Kwon KRNimura KRao SSPXu JJung SPekowska ADose MStevens EMathe EDong PHuang SCRicci MABaranello LZheng YTomassoni Ardori FResch WStavreva DNelson SMcAndrew MCasellas AFinn EGregory CSt Hilaire BGJohnson SMDubois WCosma MPBatchelor ELevens DPhair RDMisteli TTessarollo LHager GLakadamyali MLiu ZFloer MShroff HAiden ELCasellas R
Mol Cell
2017 Aug 17

Probing the target search of DNA-binding proteins in mammalian cells using TetR as model searcher.
Normanno DBoudarène LDugast-Darzacq CChen JRichter CProux FBénichou OVoituriez RDarzacq XDahan M
Nat Commun
2015 Jul 07

A general method to improve fluorophores for live-cell and single-molecule microscopy.
Grimm JBEnglish BPChen JSlaughter JPZhang ZRevyakin APatel RMacklin JJNormanno DSinger RHLionnet TLavis LD
Nat Methods
2015 Mar

Whole-cell, multicolor superresolution imaging using volumetric multifocus microscopy.
Hajj BWisniewski JEl Beheiry MChen JRevyakin AWu CDahan M
Proc Natl Acad Sci U S A
2014 Dec 09

Imaging the fate of histone Cse4 reveals de novo replacement in S phase and subsequent stable residence at centromeres.
Wisniewski JHajj BChen JMizuguchi GXiao HWei DDahan MWu C
Elife
2014 May 20

Single-molecule dynamics of enhanceosome assembly in embryonic stem cells.
Chen JZhang ZLi LChen BCRevyakin AHajj BLegant WDahan MLionnet TBetzig ETjian RLiu Z
Cell
2014 Mar 13