TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv1968/mce3C:

update plot	correlation	link to info on gene
Rv2611c/-	(cc=0.4559)	info on Rv2611c/-
Rv2922c/smc	(cc=0.43)	info on Rv2922c/smc
Rv0926c/-	(cc=0.4206)	info on Rv0926c/-
Rv3815c/-	(cc=0.4205)	info on Rv3815c/-
Rv3382c/lytB1	(cc=0.4132)	info on Rv3382c/lytB1
Rv1918c/PPE35	(cc=0.4116)	info on Rv1918c/PPE35
Rv0204c/-	(cc=0.4089)	info on Rv0204c/-
Rv0559c/-	(cc=0.4071)	info on Rv0559c/-
Rv2102/-	(cc=0.3987)	info on Rv2102/-
Rv1548c/PPE21	(cc=0.3942)	info on Rv1548c/PPE21

Correlation of Rv1968/mce3C with Rv1918c/PPE35

Normalized LFCs for Rv1968/mce3C:
(description and provenance of datasets)

	Rv1968/mce3C	Rv1918c/PPE35
Fe_supp_jason_reseq	0.185	0.426
low_pH_jason_reseq	-0.517	-0.127
NO_jason_reseq	1.066	-0.326
B6_jason_reseq	0.038	-0.212
MHCII_jason_reseq	-0.863	-0.42
Isoniazid02	0.249	0.439
Rifampicin4	0.0	0.463
Ethambutol3	1.094	0.449
Meropenem3	0.014	0.129
Vancomycin16	-0.064	0.18
Rv2680_day32	-2.687	-0.526
H37Rv_KO_MarP	-0.58	-0.339
hypoxia_3wks	-0.299	0.06
hypoxia_6wks	-1.171	-0.031
glycerol	0.237	-0.671
cholesterol	0.461	0.318
AJ	-0.45	0.432
Bibs02	-0.434	0.189
Bibs02c	0.311	0.083
BL6	0.663	0.442
BL6a	0.294	0.641
BXD01	-0.967	0.383
BXD010	-0.023	0.525
BXD011	0.78	0.747
BXD03	0.955	0.904
BXD04	0.344	0.687
BXD05	1.175	0.8
BXD06	0.604	0.584
BXD07	0.659	0.666
BXD08	0.0	0.605
BXD09	0.833	0.602
CAST	-0.169	0.21
CCcont	0.103	0.226
DS01	0.625	0.185
DS02	0.959	0.17
DS04	-0.18	0.128
DS0c	0.184	0.058
GP01	0.481	0.102
GP02	0.534	0.421
GP0c	0.48	0.658
NOD	0.155	0.286
NZO	-1.03	0.23
PWK	0.843	0.153
H37Rv_KO_CtpC	1.191	0.711
H37Rv_KO_CtpD	1.252	1.161
H37Rv_KO_Rv1272	1.119	1.414
H37Rv_KO_SugABC	-0.072	0.711
H37Rv_KO_MbtN	0.036	1.033
Trans05	0.398	1.383
macrophage_unactivated	0.862	0.533
IL1	1.794	0.329
Rapamycin	0.0	0.411
Tcell	-0.355	0.437
GMCSF	0.62	0.354
IFNab	1.082	0.151
IFNg	1.08	0.166
IFNg_GMCSF1	0.936	0.738
Rv1432_day32	1.368	0.562
Rv1565c_day32	0.436	-0.227
secA2_input	-0.504	-0.441
delta_Rv3594	1.095	-0.106
delta_Rv3717	0.21	-0.257
delta_Rv3811	0.796	0.366
delta_Rv0954	0.638	0.014
PonA1	0.309	-0.22
EccD1_KO	-1.352	-0.572
EspI_KO	0.194	-0.365
PE35_KO	-0.035	-0.44
PPE68_KO	-0.675	-0.518
glycerol2	-0.82	-0.422
lignocerate	-0.1	-0.242
oleate	-0.829	-0.041
phosphatidylcholine	-0.508	-0.21
acetate	1.38	-0.47
glucAc	0.81	-0.123
Rv0950ko	0.103	-0.488
Rv1096ko	0.202	-1.001
Rv3684ko	0.531	-0.347
delta_otsA_trehalose	-0.073	-0.684