REAGENT or RESOURCE	SOURCE	IDENTIFIER
Antibodies
Rabbit Monoclonal anti-RPS3	Cell Signaling Technology	Cat# 9538
Rabbit Polyclonal anti-RPS29	Sigma-Aldrich	Cat# AV40329; RRID:AB_1856467
Rabbit Polyclonal anti-RPS18	Abcam	Cat# ab91293; RRID:AB_2050267
Rabbit Polyclonal anti-EXOSC10	Abcam	Cat# ab50558; RRID:AB_869937
Goat Polyclonal anti-PAPD5	Sigma-Aldrich	Cat# SAB2501846 (lot number 10875P1)
Mouse Monoclonal anti-RNA PolII F-12	Santa Cruz Biotechnology	Cat# sc-55492
Rabbit anti-RNA PolI (RPA-116/RPA2)	gifted by Prof. Dr. Ingrid Grummt	N/A
Mouse Monoclonal anti-U2AF65	Sigma-Aldrich	Cat# U4758
Mouse Monoclonal anti-β-Actin	Sigma-Aldrich	Cat# A5441
Rabbit Polyclonal anti-NOCTURNIN	Prepared by C.B. Green	N/A
Mouse Monoclonal Anti-α-Tubulin	Sigma-Aldrich	Cat# T9026
B-catenin	BD Biosciences	Cat#610154
Rabbit anti-phospho-S6 Ribosomal Protein (Ser235/236)	Cell Signaling Technology	Cat#2211
Rabbit anti-S6 ribosomal Protein (5G10)	Cell Signaling Technology	Cat#2217
Chemicals, Peptides, and Recombinant Proteins
Lipofectamine RNAiMAX	Thermo Fisher Scientific	Cat# 13778075
Cycloheximide	Sigma-Aldrich	Cat# C7698
TRIZOL	Thermo Fisher Scientific	Cat#15596018
Critical Commercial Assays
μMACS Streptavidin kit	Miltenyi Biotec	Cat# 130-074-101
SuperScript II reverse transcriptase	Thermo Fisher Scientific	Cat# 18064071
SYBR Green Master Mix	Roche	Cat# 04707516001
Deposited Data
Ribosome profiling and RNA-seq data (ad lib-fed mice)	GEO (http://www.ncbi.nlm.nih.gov/geo/)	GSE67305
Ribosome profiling and RNA-seq data (night-fed mice)	GEO (http://www.ncbi.nlm.nih.gov/geo)	GSE73554
Experimental Models: Cell Lines
NIH 3T3 cell line	ATCC	Cat# CRL-6442 RRID:CVCL_0594
Experimental Models: Organisms/Strains
Mouse: Wild-type C57BL/6JRJ	Janvier Labs	RRID:IMSR_JAX:000664
Mouse: WT and Nocturnin KO mice (C57BL/6 background)	Laboratory of C.B. Green	N/A
Recombinant DNA
Sequence-Based Reagents
ON-TARGET SMART-Pool siRNAs targeting Rps29 sequence	Dharmacon (GE Healthcare)	Cat# L-045910
ON-TARGET SMART-Pool siRNAs targeting Rps18 sequence	Dharmacon (GE Healthcare)	Cat# L-042224
ON-TARGET SMART-Pool siRNAs targeting Rps3 sequence	Dharmacon (GE Healthcare)	Cat# L-047921
ON-TARGET SMART-Pool siRNAs targeting Papd5 sequence	Dharmacon (GE Healthcare)	Cat# L-061333
ON-TARGET SMART-Pool siRNAs targeting Exosc10 sequence	Dharmacon (GE Healthcare)	Cat# L-049286
ON-TARGET SMART-Pool siRNAs targeting PARN sequence	Dharmacon (GE Healthcare)	Cat# L-040664
ON-TARGET SMART-Pool siRNAs targeting Xrn2 sequence	Dharmacon (GE Healthcare)	Cat# L-046490
See Table S1 for primer list	This paper	N/A
Software and Algorithms
ImageJ	NIH	https://imagej.nih.gov/ij/
MATLAB	MathWorks	https://www.mathworks.com
Other