Skip to main content
. Author manuscript; available in PMC: 2020 Aug 18.
Published in final edited form as: Cell Rep. 2019 Jun 18;27(12):3522–3532.e3. doi: 10.1016/j.celrep.2019.05.062

KEY RESOURCES TABLE

REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies

KDM1A/LSD1 Abcam Cat#ab17721; RRID: AB_443964
GR-H300 Santa Cruz Cat#sc-8992; RRID: AB_2155784
H3K4me1 Abcam Cat#ab8895; RRID: AB_306847
H3K4me2 Millipore Cat#07–030; RRID: AB_310342
H3K4me3 Millipore Cat#07–473; RRID: AB_1977252
H3K9me2 Abcam Cat#ab1220; RRID: AB_449854
H3K27ac Millipore Cat#17–683; RRID: AB_1977529
H3 Abcam Cat#ab1791; RRID: AB_302613

Bacterial and Virus Strains

KDM1A shRNA (L-sh1) Sigma TRCN0000046071
KDM1A shRNA (L-sh2) Sigma TRCN0000046072

Chemicals, Peptides, and Recombinant Proteins

GR protein This paper N/A
KDM1A protein This paper N/A
Dexamethasone Sigma Cat#D1756
Tranylcypromine Sigma Cat#P8511

Deposited Data

RNA-seq and ChIP-seq This paper GEO: GSE108588

Experimental Models: Cell Lines

A549 ATCC ATCC CCL-185; RRID: CVCL_0023

Recombinant DNA

GR-pGEX-4T-1 This paper available upon request

Software and Algorithms

Salmon Patro et al., 2017 https://combine-lab.github.io/salmon/
DESeq2 Love et al., 2014 https://bioconductor.org/packages/release/bioc/html/DESeq2.html
Bowtie (v0.12.7) Langmead et al., 2009 http://bowtie-bio.sourceforge.net/index.shtml
MACS v1.4 Zhang et al., 2008 http://liulab.dfci.harvard.edu/MACS/
Samtools http://samtools.sourceforge.net
DeepTools Ramírez et al., 2016 https://deeptools.readthedocs.io/en/develop/
KentUtils Kent et al., 2010 https://github.com/ENCODE-DCC/kentUtils
BEDtools Quinlan and Hall, 2010 https://bedtools.readthedocs.io/en/latest/content/bedtools-suite.html
GenomicRanges Lawrence et al., 2013 https://bioconductor.org/packages/release/bioc/html/GenomicRanges.html
HOMER (v4.10) Heinz et al., 2010 http://homer.ucsd.edu/homer/motif/
MEME Suit Bailey et al., 2009 http://homer.ucsd.edu/homer/motif/
ggplot2 Wickham, 2009 https://ggplot2.tidyverse.org
ComplexHeatmap Gu et al., 2016 https://bioconductor.org/packages/release/bioc/html/ComplexHeatmap.html