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 Rv2880c/-

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

	Rv1702c/-	Rv2880c/-
Fe_supp_jason_reseq	0.508	-0.338
low_pH_jason_reseq	-1.246	-0.813
NO_jason_reseq	0.504	0.512
B6_jason_reseq	0.204	0.677
MHCII_jason_reseq	0.512	0.254
Isoniazid02	0.0	0.058
Rifampicin4	0.027	0.791
Ethambutol3	-0.063	0.495
Meropenem3	-0.252	-0.01
Vancomycin16	0.135	0.615
Rv2680_day32	-0.432	-0.55
H37Rv_KO_MarP	0.025	0.065
hypoxia_3wks	-0.159	-0.299
hypoxia_6wks	-0.367	-1.002
glycerol	0.164	-0.101
cholesterol	-0.155	-0.136
AJ	0.326	0.168
Bibs02	0.789	0.87
Bibs02c	0.123	0.915
BL6	-0.422	0.319
BL6a	0.257	0.178
BXD01	-0.032	-0.144
BXD010	0.35	0.043
BXD011	0.159	-0.47
BXD03	0.117	0.121
BXD04	-0.133	-0.023
BXD05	0.231	0.514
BXD06	-0.024	-0.332
BXD07	-0.304	0.328
BXD08	0.085	0.133
BXD09	-0.078	0.187
CAST	0.122	0.11
CCcont	-0.444	-0.302
DS01	-0.072	0.392
DS02	-0.054	0.469
DS04	0.86	0.937
DS0c	-0.107	0.104
GP01	-0.024	0.351
GP02	0.332	-0.802
GP0c	0.112	-0.251
NOD	0.08	-0.138
NZO	0.507	0.279
PWK	0.48	0.418
H37Rv_KO_CtpC	-0.111	-0.062
H37Rv_KO_CtpD	-0.56	0.341
H37Rv_KO_Rv1272	0.19	-0.253
H37Rv_KO_SugABC	0.595	0.362
H37Rv_KO_MbtN	-0.576	-0.839
Trans05	0.217	0.25
macrophage_unactivated	0.35	-0.17
IL1	0.635	0.578
Rapamycin	0.552	0.16
Tcell	0.026	-0.381
GMCSF	0.581	0.285
IFNab	0.269	0.048
IFNg	0.021	0.289
IFNg_GMCSF1	0.588	0.867
Rv1432_day32	0.242	0.997
Rv1565c_day32	-0.161	0.27
secA2_input	0.157	0.088
delta_Rv3594	-0.255	-1.169
delta_Rv3717	-0.333	-1.277
delta_Rv3811	-0.18	-1.097
delta_Rv0954	0.446	-1.151
PonA1	-0.381	-0.733
EccD1_KO	0.717	0.115
EspI_KO	0.365	0.753
PE35_KO	-0.411	0.907
PPE68_KO	0.346	0.653
glycerol2	-0.485	0.179
lignocerate	-0.145	-0.018
oleate	-0.115	0.252
phosphatidylcholine	0.119	0.081
acetate	-0.449	-0.434
glucAc	-0.279	-0.54
Rv0950ko	0.265	0.757
Rv1096ko	-0.069	0.072
Rv3684ko	-0.229	0.0
delta_otsA_trehalose	-0.323	0.753