Molecular Cell

Article	Citations
mRNA export factors store nascent transcripts within nuclear speckles as an adaptive response to transient global inhibition of transcription	636
Deciphering the fate of replication-induced DNA double-strand breaks	600
Microbial metabolites in cancer: An interview with Wendy S. Garrett and Eran Elinav	457
Interchromosomal contacts between regulatory regions trigger stable transgenerational epigenetic inheritance in Drosophila	378
Convergence of orphan quality control pathways at a ubiquitin chain-elongating ligase	348
RIOK3 mediates the degradation of 40S ribosomes	274
Free introns of tRNAs as complementarity-dependent regulators of gene expression	267
Combinatorial mapping of E3 ubiquitin ligases to their target substrates	262
Black in Cancer: An interview with founders Sigourney Bell and Henry J. Henderson	251
Formation of toxic oligomers of polyQ-expanded Huntingtin by prion-mediated cross-seeding	245
mTORC1-CTLH E3 ligase regulates the degradation of HMG-CoA synthase 1 through the Pro/N-degron pathway	244
STING channels its proton power	230
Polymerization of ZBTB transcription factors regulates chromatin occupancy	228
Dynamic BTB-domain filaments promote clustering of ZBTB proteins	223
An IDR-dependent mechanism for nuclear receptor control of Mediator interaction with RNA polymerase II	217
Nucleic-acid-induced ZCCHC3 condensation promotes broad innate immune responses	196
A ligation-independent sequencing method reveals tRNA-derived RNAs with blocked 3′ termini	196
Feeding two birds with one scone: The dual roles of SMARCAL1 in antitumor immunity	195
Meet the authors: Shouqiao Hou and Daichao Xu	193
The RNA helicase HrpA rescues collided ribosomes in E. coli	190
Enhanced SARS-CoV-2 entry via UPR-dependent AMPK-related kinase NUAK2	186
Elucidation of E3 ubiquitin ligase specificity through proteome-wide internal degron mapping	185
Mitotic chromosomes are self-entangled and disentangle through a topoisomerase-II-dependent two-stage exit from mitosis	177
Interplay between CTCF boundaries and a super enhancer controls cohesin extrusion trajectories and gene expression	174
Compartmentalization of the SUMO/RNF4 pathway by SLX4 drives DNA repair	173

Loss of LUC7L2 and U1 snRNP subunits shifts energy metabolism from glycolysis to OXPHOS	165
DNA damage promotes HLA class I presentation by stimulating a pioneer round of translation-associated antigen production	161
Epigenetic pioneering by SWI/SNF family remodelers	158
Meet the author: Vaidotas Stankevičius, Giedrius Vilkaitis, and Saulius Klimašauskas	157
AKT constitutes a signal-promoted alternative exon-junction complex that regulates nonsense-mediated mRNA decay	152
Structural insight into H4K20 methylation on H2A.Z-nucleosome by SUV420H1	151
CTCF and R-loops are boundaries of cohesin-mediated DNA looping	151
Dormant bacterial spores encrypt a long-lasting transcriptional program to be executed during revival	151
H3K4me1 facilitates promoter-enhancer interactions and gene activation during embryonic stem cell differentiation	148
INTAC endonuclease and phosphatase modules differentially regulate transcription by RNA polymerase II	146
RNA:DNA hybrids from Okazaki fragments contribute to establish the Ku-mediated barrier to replication-fork degradation	144
Noncanonical processing by animal Microprocessor	144
A unified model for cohesin function in sisterchromatid cohesion and chromatin loop formation	143
STK19 drives transcription-coupled repair by stimulating repair complex stability, RNA Pol II ubiquitylation, and TFIIH recruitment	142
Codon optimality-mediated mRNA degradation: Linking translational elongation to mRNA stability	141
RAD51AP1 regulates ALT-HDR through chromatin-directed homeostasis of TERRA	140
Stochastic initiation of DNA replication across the human genome	140
BREACHing new grounds in fragile X syndrome: Trinucleotide expansion linked to genome-wide heterochromatin domains and genome misfolding	138
USP4 Auto-Deubiquitylation Promotes Homologous Recombination	135
Transcriptional regulation and exploring uncharted waters: An interview with Dr. James T. Kadonaga	134
25 years of molecular mechanisms	130
Diving into chromatin organization and DNA repair: An interview with Dr. Susan M. Gasser	127
Meet the authors: Grazia Pellicanò and Rodrigo Bermejo	126
A new way of D/Ealing with protein misfolding	125
Rising to the challenge of COVID-19: Working on SARS-CoV-2 during the pandemic	125
m6A RNA methylation regulates promoter- proximal pausing of RNA polymerase II	124
SUMOylation of linker histone H1 drives chromatin condensation and restriction of embryonic cell fate identity	124
Stress, epigenetics, and aging: Unraveling the intricate crosstalk	122
Mapping subcellular localizations of unannotated microproteins and alternative proteins with MicroID	121
SPT6 functions in transcriptional pause/release via PAF1C recruitment	118
Lactate activates the mitochondrial electron transport chain independently of its metabolism	117
Phage anti-CBASS protein simultaneously sequesters cyclic trinucleotides and dinucleotides	117
The molecular basis of tRNA selectivity by human pseudouridine synthase 3	116
eIF4G as a switch for heat shock mRNA translation	116
Viperin triggers ribosome collision-dependent translation inhibition to restrict viral replication	116
Meet the authors: The Ji lab	115
D-2HG comes out of its shell: Metabolic effects on the immune environment	115
Terms and conditions	112
Transposon-taming piRNAs in the germline: Where do they come from?	111
A DNA helicase remodeling proteins: How DNA-protein crosslink repair unfolds via FANCJ	110
Introducing new group leaders: Peiguo Yang	109
Mitochondria: A “pacemaker” for species-specific development	107
In this issue	104
Inhibiting U1 telescripting: A means to an end for transcription	104
SPOTting stress at the mitochondrial outer membrane	104
Thymine DNA glycosylase regulates cell-cycle-driven p53 transcriptional control in pluripotent cells	103
The challenges of investigating RNA function	102
Getting membrane proteins into shape	102
Discovery of chemical probes that perturb protein complexes using size exclusion chromatography and chemical proteomics	101
Diversity, Equity and Inclusion in the Laboratory: Strategies to Enhance Inclusive Laboratory Culture	101

Interrogation of the dynamic properties of higher-order heterochromatin using CRISPR-dCas9	100
Meet the authors: Mei-Sheng Xiao, Arun Prasath Damodaran, and Thomas Gonatopoulos-Pournatzis	99
Altered nucleocytoplasmic export of adenosine-rich circRNAs by PABPC1 contributes to neuronal function	99
Cryo-EM in molecular and cellular biology	98
S1-END-seq reveals DNA secondary structures in human cells	96
The GATOR2 complex maintains lysosomal-autophagic function by inhibiting the protein degradation of MiT/TFEs	95
Transitions in the framework of condensate biology	94
Ring domains are essential for GATOR2-dependent mTORC1 activation	94
Reversing the Central Dogma: RNA-guided control of DNA in epigenetics and genome editing	92
CDT1, a licensing factor that limits rereplication	90
PAX3-FOXO1 coordinates enhancer architecture, eRNA transcription, and RNA polymerase pause release at select gene targets	90
SLC4A7 and mTORC1 raise nucleotide synthesis with bicarbonate	88
Condensates, the place to hide self-immunostimulatory RNA	88
Spatial control of m6A deposition on enhancer and promoter RNAs through co-acetylation of METTL3 and H3K27 on chromatin	87
Splice epitranscriptomics and DNA damage repair together: ALKBH5-m6A-SF3B1 regulation in leukemic transformation	87
Collisions of RNA polymerases behind the replication fork promote alternative RNA splicing in newly replicated chromatin	87
Artificial intelligence in molecular biology	86
Programming of synthetic regulatory DNA for cell-type targeting in humans	86
Chromatin modifier HUSH co-operates with RNA decay factor NEXT to restrict transposable element expression	85
LncRNA CCTT-mediated RNA-DNA and RNA-protein interactions facilitate the recruitment of CENP-C to centromeric DNA during kinetochore assembly	85
Two distinct mechanisms of RNA polymerase II elongation stimulation in vivo	85
Finish the unfinished: Chd1 resolving hexasome-nucleosome complex with FACT	85
Mechanism of chaperone coordination during cotranslational protein folding in bacteria	85
The Hsp90 molecular chaperone governs client proteins by targeting intrinsically disordered regions	85
PTBP1-activated co-transcriptional splicing controls epigenetic status of pluripotent stem cells	84
Molecular basis for substrate recruitment to the PRMT5 methylosome	84
Gene architecture directs splicing outcome in separate nuclear spatial regions	84
Bidirectional substrate shuttling between the 26S proteasome and the Cdc48 ATPase promotes protein degradation	83
Knowing when to stop: Transcription termination on protein-coding genes by eukaryotic RNAPII	83
Structure of the Hir histone chaperone complex	83
BAP1 enhances Polycomb repression by counteracting widespread H2AK119ub1 deposition and chromatin condensation	82
Regulation of replicative histone RNA metabolism by the histone chaperone ASF1	82
Sequential requirements for distinct Polθ domains during theta-mediated end joining	82
Lysosome identity crisis: Phosphoinositides and mTORC1 negotiate lysosomal behavior	82
CDT1 inhibits CMG helicase in early S phase to separate origin licensing from DNA synthesis	82
Recovering from the stress of the COVID-19 pandemic	82
Solenoid architecture of HUWE1 contributes to ligase activity and substrate recognition	82
Persistence of backtracking by human RNA polymerase II	82
Free ribosomal proteins as culprits for nucleolar stress	81
Driving the wedge: Understanding an improved Cas9 to better engineer others	81
pLxIS-containing domains are biochemically flexible regulators of interferons and metabolism	79
CCAR1 promotes DNA repair via alternative splicing	79
A PARP1-TIMELESS alliance in cancer therapy	79
Engineering IscB to develop highly efficient miniature editing tools in mammalian cells and embryos	79
Polyphosphate attachment to lysine repeats is a non-covalent protein modification	79
An ATP13A1-assisted topogenesis pathway for folding multi-spanning membrane proteins	78
Pathways for macrophage uptake of cell-free circular RNAs	77
The high-light-sensitivity mechanism and optogenetic properties of the bacteriorhodopsin-like channelrhodopsin GtCCR4	76
STING: Stay near to STIM(1) neuroprotection	76
Transcription regulation through selective partitioning: Weak interactions with a strong foundation	76
Exploring the expanding universe of host-virus interactions mediated by viral RNA	76
Stalling out chromatin machinery—Oncohistone mutation disrupts heterochromatin memory	76
The phosphatase PP1 sustains global transcription by promoting RNA polymerase II pause release	75
A genome-wide screen identifies silencers with distinct chromatin properties and mechanisms of repression	75
Hydrogen sulfide: A whiff of trouble for cancer cell survival	75
Cap-specific m6Am modification: A transcriptional anti-terminator by sequestering PCF11 with implications for neuroblastoma therapy	74
Flipping a switch on BRD4: How to control the do-it-all	74
PARP enzyme de novo synthesis of protein-free poly(ADP-ribose)	74
At least two to tango: Choreographing chromatin through cooperative footprints	73
DNA nicks in both leading and lagging strand templates can trigger break-induced replication	73
The GID ubiquitin ligase complex just reached the next level of complexity	72
ecDNA party bus: Bringing the enhancer to you	72
Intron removal by the spliceosome: A solo job or a team effort?	72
Nascent RNA: Friend or foe of the chromatin bound?	71
Cas9 deactivation with photocleavable guide RNAs	71
Don’t shoot the messenger… shoot the reader	71
Conformational control of Cas9 by CRISPR hybrid RNA-DNA guides mitigates off-target activity in T cells	70
Allosteric transcription stimulation by RNA polymerase II super elongation complex	70
The Fanconi anemia ubiquitin E3 ligase complex as an anti-cancer target	70
Catching mono- and poly-ADP-ribose readers with synthetic ADP-ribose baits	70
Cryo-EM structure of the β3-adrenergic receptor reveals the molecular basis of subtype selectivity	70
MED12 and BRD4 cooperate to sustain cancer growth upon loss of mediator kinase	69
Transcript-specific determinants of pre-mRNA splicing revealed through in vivo kinetic analyses of the 1st and 2nd chemical steps	69
BARBEKO’ing in the lab: Versatile CRISPR screens with barcoded base editors	69
Proteome-wide quantitative RNA-interactome capture identifies phosphorylation sites with regulatory potential in RBM20	69
Sex, life, and death in MYC-driven lymphomagenesis	69
Coenzyme A precursors flow from mother to zygote and from microbiome to host	68
HelR is a helicase-like protein that protects RNA polymerase from rifamycin antibiotics	68
Life in lockdown: Orchestrating endoplasmic reticulum and lysosome homeostasis for quiescent cells	68
You shall not pass! Unveiling the barriers for cohesin-mediated loop extrusion	68

Genome oligopaint via local denaturation fluorescence in situ hybridization	67
The ends in sight: Mre11-Rad50-Nbs1 complex structures come into focus	67
Proteome diversification by mRNA translation in cancer	66
Hybridization-proximity labeling reveals spatially ordered interactions of nuclear RNA compartments	66
Conflicts with transcription make early replication late	66
Beyond rare disorders: A new era for peroxisomal pathophysiology	66
Zinc-finger protein Zpr1 is a bespoke chaperone essential for eEF1A biogenesis	65
Argininosuccinate lyase drives activation of mutant TERT promoter in glioblastomas	65
Two distinct long-range synaptic complexes promote different aspects of end processing prior to repair of DNA breaks by non-homologous end joining	65
RNA polymerase and ppGpp deliver a one-two punch to antibiotics	64
Targeted pseudouridylation: An approach for suppressing nonsense mutations in disease genes	64
TERRA and RAD51AP1 at the R&D-loop department of ALT telomeres	64
A non-canonical role: The Hippo pathway regulator MAP4K2 controls autophagy and cell survival upon energy stress	64
The promoter as a trip navigator: Guiding alternative polyadenylation site destinations	64
When the +1 nucleosome gets in the way, TFIIH fails but does not fall	64
A party for transcription: Multiway interactions of enhancers and promoters	64
Genome-scale mapping of DNA damage suppressors through phenotypic CRISPR-Cas9 screens	63
Machine-learning-optimized Cas12a barcoding enables the recovery of single-cell lineages and transcriptional profiles	63
Meet the authors: Meiling Wang, Wenjing Li, and Weixing Zhao	62
Meet the author: Juan Manuel Schvartzman	62
Tumor-suppressive activities for pogo transposable element derived with KRAB domain via ribosome biogenesis restriction	62
Massively parallel characterization of CRISPR activator efficacy in human induced pluripotent stem cells and neurons	62
PELI2 is a negative regulator of STING signaling that is dynamically repressed during viral infection	62
Co-transcriptional genome surveillance by HUSH is coupled to termination machinery	62
Proteome-scale identification of transcriptional activators in human cells	62
Cryo-EM structures of the human GATOR1-Rag-Ragulator complex reveal a spatial-constraint regulated GAP mechanism	62
Mitochondrial DNA breaks activate an integrated stress response to reestablish homeostasis	62
Structural basis of polyamine transport by human ATP13A2 (PARK9)	61
Sustainability and molecular biology: An interview with Dr. Andrea Bodnar	61
Structural insights into assembly and function of GluN1-2C, GluN1-2A-2C, and GluN1-2D NMDARs	61
Loss of TAX1BP1-Directed Autophagy Results in Protein Aggregate Accumulation in the Brain	60
Argininosuccinate lyase drives activation of mutant TERT promoter in glioblastomas	60
TADs do not stay in the loop	60
Energy sensor AMPK gamma regulates translation via phosphatase PPP6C independent of AMPK alpha	59
Functional and structural insights into RAS effector proteins	59
Gene architectures that minimize cost of gene expression	59
Editorial Note to: Glucose Addiction of TSC Null Cells Is Caused by Failed mTORC1-Dependent Balancing of Metabolic Demand with Supply	59
S6K1 Regulates GSK3 under Conditions of mTOR-Dependent Feedback Inhibition of Akt	59
Genetic dissection of crossover mutants defines discrete intermediates in mouse meiosis	59
Protection of Extraribosomal RPL13a by GAPDH and Dysregulation by S-Nitrosylation	59
Retraction Notice to: Human DNA polymerase θ harbors DNA end-trimming activity critical for DNA repair	59
SARS-CoV-2 RNA stabilizes host mRNAs to elicit immunopathogenesis	58
Balancing of mitochondrial translation through METTL8-mediated m3C modification of mitochondrial tRNAs	58
Structure of the RAF1-HSP90-CDC37 complex reveals the basis of RAF1 regulation	58
RNF14-dependent atypical ubiquitylation promotes translation-coupled resolution of RNA-protein crosslinks	58
eIF4F is a thermo-sensing regulatory node in the translational heat shock response	58
Molecular organization of the early stages of nucleosome phase separation visualized by cryo-electron tomography	58
SLC25A39 links mitochondrial GSH sensing with iron metabolism	58
Poly(ADP-ribosyl)ation enhances nucleosome dynamics and organizes DNA damage repair components within biomolecular condensates	58
Cytoplasmic SIRT6-mediated ACSL5 deacetylation impedes nonalcoholic fatty liver disease by facilitating hepatic fatty acid oxidation	58
Genome-wide mapping of human DNA replication by optical replication mapping supports a stochastic model of eukaryotic replication	57
EXO5-DNA structure and BLM interactions direct DNA resection critical for ATR-dependent replication restart	57
An unexpected pathway to polyamines in pancreatic cancer	56
Cryo-EM structure of the Mre11-Rad50-Nbs1 complex reveals the molecular mechanism of scaffolding functions	56
Structural basis of target DNA recognition by CRISPR-Cas12k for RNA-guided DNA transposition	56
Cryo-EM structure of MukBEF reveals DNA loop entrapment at chromosomal unloading sites	56
NSD1 mediates antagonism between SWI/SNF and polycomb complexes and is required for transcriptional activation upon EZH2 inhibition	56
BamA forms a translocation channel for polypeptide export across the bacterial outer membrane	56
FUBP1 is a general splicing factor facilitating 3′ splice site recognition and splicing of long introns	56
Remdesivir is a delayed translocation inhibitor of SARS-CoV-2 replication	56
Combining targeted DNA repair inhibition and immune-oncology approaches for enhanced tumor control	56
Distal and proximal cis-regulatory elements sense X chromosome dosage and developmental state at the Xist locus	55
Methylation of histone H3 at lysine 37 by Set1 and Set2 prevents spurious DNA replication	55
Comprehensive interactome profiling of the human Hsp70 network highlights functional differentiation of J domains	55
SREBP-1c impairs ULK1 sulfhydration-mediated autophagic flux to promote hepatic steatosis in high-fat-diet-fed mice	55
Circular DNA in the human germline and its association with recombination	54
Pseudouridine synthases modify human pre-mRNA co-transcriptionally and affect pre-mRNA processing	53
RASopathy mutations provide functional insight into the BRAF cysteine-rich domain and reveal the importance of autoinhibition in BRAF regulation	53
The new era of quantitative cell imaging—challenges and opportunities	53
Now open: Evolving insights to the roles of lysine acetylation in chromatin organization and function	53
m6A-driven SF3B1 translation control steers splicing to direct genome integrity and leukemogenesis	52
Protease-mediated processing of Argonaute proteins controls small RNA association	52
Liquid phase separation of NEMO induced by polyubiquitin chains activates NF-κB	52
WWC proteins mediate LATS1/2 activation by Hippo kinases and imply a tumor suppression strategy	52
Mechanisms for HNH-mediated target DNA cleavage in type I CRISPR-Cas systems	52
CDK-independent role of D-type cyclins in regulating DNA mismatch repair	51
Unresolved stalled ribosome complexes restrict cell-cycle progression after genotoxic stress	51
Genome-wide quantification of RNA flow across subcellular compartments reveals determinants of the mammalian transcript life cycle	51
HRD1-mediated METTL14 degradation regulates m6A mRNA modification to suppress ER proteotoxic liver disease	51
Gene bookmarking by the heat shock transcription factor programs the insulin-like signaling pathway	51
Autophagy preferentially degrades non-fibrillar polyQ aggregates	51
Molecular mechanisms of early plant pattern-triggered immune signaling	51
N6-methyladenosine in 7SK small nuclear RNA underlies RNA polymerase II transcription regulation	51
Mechanism of homology search expansion during recombinational DNA break repair in Saccharomyces cerevisiae	50
Anti-apoptotic MCL-1 promotes long-chain fatty acid oxidation through interaction with ACSL1	50
Exploiting dynamic enhancer landscapes to decode macrophage and microglia phenotypes in health and disease	50
BRCA2 promotes genomic integrity and therapy resistance primarily through its role in homology-directed repair	50
Large-scale clustering of AlphaFold2 3D models shines light on the structure and function of proteins	50
Autophagic Degradation of the 26S Proteasome Is Mediated by the Dual ATG8/Ubiquitin Receptor RPN10 in Arabidopsis	49
Gating movements and ion permeation in HCN4 pacemaker channels	49
Non-canonical autophagy drives alternative ATG8 conjugation to phosphatidylserine	49
Small RNAs and Hfq capture unfolded RNA target sites during transcription	49
Loss of nuclear DNA ligase III reverts PARP inhibitor resistance in BRCA1/53BP1 double-deficient cells by exposing ssDNA gaps	49
Structure of the human signal peptidase complex reveals the determinants for signal peptide cleavage	49
MLL::AF9 degradation induces rapid changes in transcriptional elongation and subsequent loss of an active chromatin landscape	49