Antibodies |
Rabbit anti-PGK1 polyclonal |
Antibodies-online.com |
Cat# ABIN568371 |
Rabbit anti-IAPP polyclonal |
Sigma Aldrich |
Cat# HPA053194 |
Donkey anti-mouse secondary 800CW dye conjugate |
LI-COR |
Cat# 926-32212 |
Donkey anti-rabbit secondary 680CW dye conjugate |
LI-COR |
Cat# 926-68073 |
Rabbit anti-mouse secondary polyclonal HRP conjugate |
Sigma Aldrich |
Cat# A-9044 |
Bacterial and Virus Strains |
Escherichia coli DH5alpha |
ATCC |
Cat# 69021 |
Biological Samples |
|
|
Chemicals, Peptides, and Recombinant Proteins |
Nourseothricin dihydrogen sulfate (ClonNAT) |
Werner BioAgents |
Cat# 5.005.000 |
G418 (geneticin) |
Life Technologies |
Cat# 10131027 |
B-Estradiol |
Sigma Aldrich |
Cat# E8875-5G |
Propidium iodide |
Sigma Aldrich |
Cat# P4864 |
Lopinavir |
Sigma Aldrich |
Cat# SML1222-10MG |
Yeast nitrogen base |
VWR |
Cat# 90004-146 |
Complete supplement mixture (CSM) media |
Sunrise Science Products |
Cat# 1001-100 |
CSM lacking uracil |
Sunrise Science Products |
Cat# 1004-100 |
CSM lacking leucine |
Sunrise Science Products |
Cat# 1005-100 |
CSM lacking histidine |
Sunrise Science Products |
Cat# 1006-100 |
CSM lacking uracil and histidine |
Sunrise Science Products |
Cat# 1009-100 |
Critical Commercial Assays |
TruSeq RNA Library Prep Kit |
Ilumina |
|
Deposited Data |
RNASeq |
GEO |
GSE104172 |
Experimental Models: Cell Lines |
INS-1 823/13 |
Newgard Lab |
CVCL_7226 |
Experimental Models: Organisms/Strains |
S. cerevisiae: Strain background: W303 |
ATCC |
Cat# 201238 |
S. cerevisiae: Strain background: BY4741 |
ATCC |
Cat# 201388 |
Oligonucleotides |
Please see Table S5
|
|
|
Recombinant DNA |
Please see Table S6 for all plasmids |
|
|
Software and Algorithms |
GraphPad Prism |
GraphPad Software |
https://www.graphpad.com/scientific-software/prism/ |
SGA Score algorithm |
Baryshnikova et al, 2010 |
|
Cell Profiler |
Kamentsky et al., 2011 |
cellprofiler.org |
TopHat |
Trapnell et al., 2009 |
https://ccb.jhu.edu/software/tophat/index.shtml |
htseq-count |
Anders et al., 2015 |
|
EdgeR |
Robinson et al., 2010 |
|
Picard |
Broad Institute |
http://broadinstitute.github.io/picard/ |
Burrows-Wheeler Aligner (BWA) |
|
http://bio-bwa.sourceforge.net/ |
GATK |
Broad Institute |
https://software.broadinstitute.org/gatk/ |
Variant Effect Predictor (VEP) |
McLaren et al., 2016 |
https://useast.ensembl.org/info/docs/tools/vep/index.html |
EPACTS |
|
http://csg.sph.umich.edu/kang/epacts/download/index.html |
EIGENSTRAT |
|
https://github.com/DReichLab/EIG/tree/master/EIGENSTRAT |
MATLAB |
The Mathworks Inc. |
https://www.mathworks.com/products/matlab.html |
FlowJo v8 |
FlowJo, LLC. |
https://www.flowjo.com/solutions/flowjo/downloads |
ImageJ |
|
https://imagej.net/Welcome |
Other |