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 Rv0922/-:

update plot	correlation	link to info on gene
Rv0323c/-	(cc=0.559)	info on Rv0323c/-
Rv0911/-	(cc=0.4745)	info on Rv0911/-
Rv1448c/tal	(cc=0.4567)	info on Rv1448c/tal
Rv2469c/-	(cc=0.436)	info on Rv2469c/-
Rv2797c/-	(cc=0.4071)	info on Rv2797c/-
Rv0276/-	(cc=0.3992)	info on Rv0276/-
Rv0500A/-	(cc=0.3972)	info on Rv0500A/-
Rv2685/arsB1	(cc=0.3916)	info on Rv2685/arsB1
Rv2211c/gcvT	(cc=0.3801)	info on Rv2211c/gcvT
Rv3011c/gatA	(cc=0.3645)	info on Rv3011c/gatA

Correlation of Rv0922/- with Rv0323c/-

Normalized LFCs for Rv0922/-:
(description and provenance of datasets)

	Rv0922/-	Rv0323c/-
Fe_supp_jason_reseq	-0.548	-1.607
low_pH_jason_reseq	-0.729	-0.487
NO_jason_reseq	-0.339	-0.441
B6_jason_reseq	-0.846	-1.211
MHCII_jason_reseq	-0.378	-0.628
Isoniazid02	0.306	0.694
Rifampicin4	-0.195	-1.026
Ethambutol3	-0.088	0.866
Meropenem3	0.028	-0.734
Vancomycin16	0.061	-0.212
Rv2680_day32	0.197	1.477
H37Rv_KO_MarP	0.281	0.268
hypoxia_3wks	-0.1	-0.399
hypoxia_6wks	0.167	0.326
glycerol	0.252	0.111
cholesterol	-0.151	0.095
AJ	-0.039	-0.768
Bibs02	0.174	0.997
Bibs02c	0.156	-0.629
BL6	0.518	1.152
BL6a	0.247	0.274
BXD01	0.46	0.18
BXD010	-0.166	0.732
BXD011	0.279	0.77
BXD03	-0.167	0.613
BXD04	0.154	0.108
BXD05	-0.022	0.074
BXD06	0.268	0.311
BXD07	0.207	0.523
BXD08	0.35	0.481
BXD09	0.133	1.14
CAST	0.831	-0.367
CCcont	0.157	0.873
DS01	0.103	0.104
DS02	0.282	0.66
DS04	-0.389	-0.833
DS0c	0.013	-0.346
GP01	0.665	1.82
GP02	-0.608	-0.237
GP0c	0.433	0.971
NOD	1.191	0.148
NZO	-0.137	0.11
PWK	-0.217	-0.946
H37Rv_KO_CtpC	0.251	-0.393
H37Rv_KO_CtpD	-0.254	-1.894
H37Rv_KO_Rv1272	-0.072	-0.134
H37Rv_KO_SugABC	0.485	0.249
H37Rv_KO_MbtN	-1.086	-1.591
Trans05	0.467	-0.917
macrophage_unactivated	-0.372	0.18
IL1	0.285	0.605
Rapamycin	0.715	0.838
Tcell	0.293	0.362
GMCSF	-0.18	-0.187
IFNab	0.139	0.399
IFNg	0.636	1.406
IFNg_GMCSF1	0.437	-0.072
Rv1432_day32	-1.116	0.269
Rv1565c_day32	-0.182	0.479
secA2_input	-0.567	-1.043
delta_Rv3594	0.638	-0.483
delta_Rv3717	0.171	-0.527
delta_Rv3811	0.228	-0.578
delta_Rv0954	0.366	0.155
PonA1	0.57	0.197
EccD1_KO	-0.289	0.118
EspI_KO	0.482	0.297
PE35_KO	-0.365	-0.642
PPE68_KO	-0.31	-0.403
glycerol2	0.126	1.058
lignocerate	-0.041	1.085
oleate	0.048	0.352
phosphatidylcholine	0.246	0.748
acetate	-0.176	0.238
glucAc	-0.366	0.358
Rv0950ko	0.292	0.582
Rv1096ko	0.22	0.359
Rv3684ko	0.442	0.046
delta_otsA_trehalose	1.511	3.156