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 Rv0194/-:

update plot	correlation	link to info on gene
Rv0160c/PE4	(cc=0.6467)	info on Rv0160c/PE4
Rv0115/hddA	(cc=0.6193)	info on Rv0115/hddA
Rv3738c/PPE66	(cc=0.5742)	info on Rv3738c/PPE66
Rv1501/-	(cc=0.5485)	info on Rv1501/-
Rv1888c/-	(cc=0.536)	info on Rv1888c/-
Rv2390c/-	(cc=0.5346)	info on Rv2390c/-
Rv0232/-	(cc=0.5273)	info on Rv0232/-
Rv0342/iniA	(cc=0.5257)	info on Rv0342/iniA
Rv2077c/-	(cc=0.5153)	info on Rv2077c/-
Rv0354c/PPE7	(cc=0.4966)	info on Rv0354c/PPE7

Correlation of Rv0194/- with Rv2077c/-

Normalized LFCs for Rv0194/-:
(description and provenance of datasets)

	Rv0194/-	Rv2077c/-
Fe_supp_jason_reseq	-0.058	-0.658
low_pH_jason_reseq	-0.393	-0.442
NO_jason_reseq	0.037	0.249
B6_jason_reseq	-0.047	0.26
MHCII_jason_reseq	-0.046	-0.431
Isoniazid02	-0.858	-0.18
Rifampicin4	0.203	0.043
Ethambutol3	-0.409	-0.505
Meropenem3	-1.028	-0.181
Vancomycin16	-0.464	-0.143
Rv2680_day32	0.181	0.272
H37Rv_KO_MarP	0.456	0.113
hypoxia_3wks	0.056	0.355
hypoxia_6wks	0.115	0.198
glycerol	0.0	-0.357
cholesterol	-0.104	-0.385
AJ	0.111	0.161
Bibs02	0.0	0.465
Bibs02c	0.035	-0.064
BL6	0.133	0.336
BL6a	0.089	0.116
BXD01	-0.121	-0.309
BXD010	0.049	-0.019
BXD011	0.049	-0.142
BXD03	-0.036	-0.295
BXD04	0.234	-0.317
BXD05	-0.11	-0.128
BXD06	0.076	-0.031
BXD07	0.159	-0.215
BXD08	0.043	0.13
BXD09	-0.027	0.032
CAST	0.067	-0.367
CCcont	-0.01	-0.148
DS01	-0.046	-0.195
DS02	0.071	-0.243
DS04	0.056	0.195
DS0c	0.481	-0.556
GP01	0.584	0.514
GP02	0.367	0.626
GP0c	-0.07	0.205
NOD	0.164	-0.096
NZO	0.498	-0.101
PWK	0.266	0.409
H37Rv_KO_CtpC	0.053	0.304
H37Rv_KO_CtpD	1.262	0.53
H37Rv_KO_Rv1272	-0.274	0.412
H37Rv_KO_SugABC	0.454	0.799
H37Rv_KO_MbtN	0.423	0.307
Trans05	0.303	0.764
macrophage_unactivated	-0.016	-0.06
IL1	-0.131	0.294
Rapamycin	-0.193	-0.325
Tcell	-0.339	-0.463
GMCSF	0.063	-0.227
IFNab	0.115	0.042
IFNg	0.051	0.345
IFNg_GMCSF1	0.148	-0.544
Rv1432_day32	0.194	0.143
Rv1565c_day32	-0.469	0.103
secA2_input	0.025	0.158
delta_Rv3594	-0.304	-0.323
delta_Rv3717	-0.214	-0.339
delta_Rv3811	-0.173	-0.03
delta_Rv0954	-0.275	0.388
PonA1	-0.54	0.055
EccD1_KO	-0.168	-0.464
EspI_KO	-0.362	-0.268
PE35_KO	-0.519	-1.024
PPE68_KO	-0.518	-0.819
glycerol2	0.61	0.928
lignocerate	0.496	0.906
oleate	0.564	0.808
phosphatidylcholine	0.335	1.206
acetate	0.098	0.527
glucAc	-0.025	0.385
Rv0950ko	0.507	0.525
Rv1096ko	-0.341	0.036
Rv3684ko	0.0	0.393
delta_otsA_trehalose	-0.205	0.628