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 Rv1702c/-:

update plot	correlation	link to info on gene
Rv0659c/mazF2	(cc=0.4413)	info on Rv0659c/mazF2
Rv0388c/PPE9	(cc=0.4379)	info on Rv0388c/PPE9
Rv2880c/-	(cc=0.4163)	info on Rv2880c/-
Rv3521/-	(cc=0.4146)	info on Rv3521/-
Rv3451/cut3	(cc=0.4125)	info on Rv3451/cut3
Rv2302/-	(cc=0.4112)	info on Rv2302/-
Rv1000c/-	(cc=0.3977)	info on Rv1000c/-
Rv2349c/plcC	(cc=0.392)	info on Rv2349c/plcC
Rv3095/-	(cc=0.39)	info on Rv3095/-
Rv2704/-	(cc=0.3706)	info on Rv2704/-

Correlation of Rv1702c/- with Rv3521/-

Normalized LFCs for Rv1702c/-:
(description and provenance of datasets)

	Rv1702c/-	Rv3521/-
Fe_supp_jason_reseq	0.508	-0.287
low_pH_jason_reseq	-1.246	-0.927
NO_jason_reseq	0.504	0.339
B6_jason_reseq	0.204	-0.667
MHCII_jason_reseq	0.512	-0.091
Isoniazid02	0.0	-0.22
Rifampicin4	0.027	0.309
Ethambutol3	-0.063	0.666
Meropenem3	-0.252	-0.187
Vancomycin16	0.135	1.059
Rv2680_day32	-0.432	-0.058
H37Rv_KO_MarP	0.025	0.524
hypoxia_3wks	-0.159	0.231
hypoxia_6wks	-0.367	-0.025
glycerol	0.164	0.159
cholesterol	-0.155	-0.219
AJ	0.326	0.578
Bibs02	0.789	0.241
Bibs02c	0.123	-0.147
BL6	-0.422	0.325
BL6a	0.257	0.044
BXD01	-0.032	0.424
BXD010	0.35	0.455
BXD011	0.159	0.736
BXD03	0.117	0.672
BXD04	-0.133	0.272
BXD05	0.231	0.415
BXD06	-0.024	0.342
BXD07	-0.304	0.232
BXD08	0.085	1.005
BXD09	-0.078	0.163
CAST	0.122	0.142
CCcont	-0.444	-0.257
DS01	-0.072	0.156
DS02	-0.054	0.566
DS04	0.86	0.804
DS0c	-0.107	0.64
GP01	-0.024	-0.032
GP02	0.332	0.832
GP0c	0.112	0.296
NOD	0.08	0.26
NZO	0.507	0.623
PWK	0.48	0.179
H37Rv_KO_CtpC	-0.111	0.155
H37Rv_KO_CtpD	-0.56	0.765
H37Rv_KO_Rv1272	0.19	1.102
H37Rv_KO_SugABC	0.595	0.614
H37Rv_KO_MbtN	-0.576	-0.252
Trans05	0.217	0.759
macrophage_unactivated	0.35	-0.331
IL1	0.635	0.561
Rapamycin	0.552	0.684
Tcell	0.026	0.283
GMCSF	0.581	0.354
IFNab	0.269	0.166
IFNg	0.021	0.045
IFNg_GMCSF1	0.588	0.421
Rv1432_day32	0.242	-0.005
Rv1565c_day32	-0.161	0.172
secA2_input	0.157	-0.041
delta_Rv3594	-0.255	0.194
delta_Rv3717	-0.333	0.167
delta_Rv3811	-0.18	0.106
delta_Rv0954	0.446	0.513
PonA1	-0.381	0.16
EccD1_KO	0.717	0.234
EspI_KO	0.365	0.054
PE35_KO	-0.411	-0.146
PPE68_KO	0.346	-0.048
glycerol2	-0.485	-0.149
lignocerate	-0.145	-0.223
oleate	-0.115	0.103
phosphatidylcholine	0.119	0.207
acetate	-0.449	-0.69
glucAc	-0.279	-0.429
Rv0950ko	0.265	0.32
Rv1096ko	-0.069	0.365
Rv3684ko	-0.229	0.763
delta_otsA_trehalose	-0.323	-0.673