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Research Articles
Mutant p53 Exploits Enhancers to Elevate Immunosuppressive Chemokine Expression and Impair Immune Checkpoint Inhibitors in Pancreatic Cancer
Mahat DB‡, Kumra H, Castro SA, Metcalf E, Nguyen K, Morisue R, Ho WW, Chen I, Sullivan B, Yim LK, Singh A, Fu J, Waterton SK, Cheng Y, Roberge S, Moiso E, Chauhan VP, Moura Silva H, Spranger S, Jain RK‡, Sharp PA‡.
Keywords: Mutant p53 | Enhancers | Immunosuppressive chemokines | Immune checkpoint inhibitors | Pancreatic cancer
Media coverage: ACIR
Single-cell nascent RNA sequencing unveils coordinated global transcription
Mahat DB, Tippens, ND, Martin-Rufino, JD, Waterton SK, Fu T, Blatt SE, Sharp PA.
Keywords: Single-cell | Nascent RNA sequencing | Transcription kinetics | Gene regulation | Enhancer-gene coordination
Transcription factor antagonism regulates heterogeneity in embryonic stem cell states
Hu S, Metcalf E, Mahat DB, Chan L, Sohal N, Chakraborty M, Hamilton M, Singh A, Singh A, Lees JA, Sharp PA, Salil Garg.
Keywords: Cell state heterogeneity | Transcription factor antagonism | mPRO-seq | Embryonic stem cells | Pluripotency
Stress-induced transcriptional memory accelerates promoter-proximal pause release and decelerates termination over mitotic divisions
Vihervaara A, Mahat DB, Himanen SV, Blom MAH, Lis JT, Sistonen L.
Keywords: Transcriptional memory | Stress response | Promoter-proximal pausing | Transcription termination mitotic inheritance
Transcriptional Pause Sites Delineate Stable Nucleosome-Associated Premature Polyadenylation Suppressed by U1 snRNP
Chiu AC, Suzuki HI, Wu X, Mahat DB, Kriz AJ, Sharp PA.
Keywords: Premature polyadenylation | U1 snRNP | Transcriptional pausing | Nucleosome positioning | RNA processing
Transcriptional response to stress is pre-wired by promoter and enhancer architecture
Vihervaara A, Mahat DB, Guertin MJ, Chu T, Danko CG, Lis JT, Sistonen L.
Keywords: Stress response | Promoter architecture | Enhancer regulation | Transcriptional activation | Gene expression networks
CBP regulates recruitment and release of promoter-proximal RNA polymerase II
Boija A*, Mahat DB*, Zare A, Holmqvist P-H, Philip P, Meyers DJ, Cole PA, Lis JT, Stenberg P, Mannervik.
Keywords: Chromatin regulation | Transcriptional elongation | CREB-binding protein (CBP/p300) | Gene expression | Promoter-proximal pausing
Mammalian heat shock response and mechanisms underlying its genome-wide transcriptional regulation
Mahat DB, Salamanca HH, Duarte FM, Danko CG, Lis JT.
Keywords: Heat Shock Factors (HSF1/HSF2) | Stress response | Transcription regulation | RNA polymerase II dynamics | Chaperone biology
Base-pair-resolution genome-wide mapping of active RNA polymerases using precision nuclear run-on (PRO-seq)
Mahat DB*, Kwak H*, Booth GT, Jonkers IH, Danko CG, Patel RK, Waters CT, Munson K, Core LJ, Lis JT.
Keywords: PRO-seq | Enhancer regulation | Genome-wide transcription | RNA polymerase activity | Protocol/methodology
Use of conditioned media is critical for studies of regulation in response to rapid heat shock
Mahat DB, Lis JT.
Keywords: Heat shock response | Transcriptional regulation | Experimental methodology | Heat Shock Factors (HSF1/HSF2) | Serum Response Factor (SRF)
Transcription factors GAF and HSF act at distinct regulatory steps to modulate stress-induced gene activation
Duarte FM, Fuda NJ, Mahat DB, Core LJ, Guertin MJ, Lis JT.
Keywords: HSF (heat shock factor) | Stress response | Promoter-proximal pausing | Transcription regulation | Gene expression
Coordinated expression of tristetraprolin post-transcriptionally attenuates mitogenic induction of the oncogenic ser/thr kinase pim-1
Mahat DB*, Brennan-Laun SE*, Fialcowitz-White EJ, Kishor A, Ross CR, Pozharskaya T, Rawn JD, Blackshear PJ, Hassel BA, Wilson GM.
Keywords: Tristetraprolin (TTP) | Oncogene regulation | Post-transcriptional regulation | RNA destabilization | Mitogenic signaling
Patent
Single-cell RNA sequencing using click-chemistry
Mahat DB, Sharp PA
U.S. Patent Number: US-11519027-B2, Granted on: 2022-12-06
Thesis
Dissection of the Mechanisms Underlying Genome-Wide Transcriptional Regulation of Mammalian Stress Response
Mahat DB