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 Rv3884c/eccA2:

update plot	correlation	link to info on gene
Rv2512c/-	(cc=0.5705)	info on Rv2512c/-
Rv2479c/-	(cc=0.5496)	info on Rv2479c/-
Rv2816c/-	(cc=0.5417)	info on Rv2816c/-
Rv3407/vapB47	(cc=0.5374)	info on Rv3407/vapB47
Rv1764/-	(cc=0.5371)	info on Rv1764/-
Rv3380c/-	(cc=0.5333)	info on Rv3380c/-
Rv3018c/PPE46	(cc=0.5317)	info on Rv3018c/PPE46
Rv0755c/PPE12	(cc=0.5276)	info on Rv0755c/PPE12
Rv2167c/-	(cc=0.5267)	info on Rv2167c/-
Rv2106/-	(cc=0.5251)	info on Rv2106/-

Correlation of Rv3884c/eccA2 with Rv3380c/-

Normalized LFCs for Rv3884c/eccA2:
(description and provenance of datasets)

	Rv3884c/eccA2	Rv3380c/-
Fe_supp_jason_reseq	-0.377	-0.158
low_pH_jason_reseq	-0.718	-0.361
NO_jason_reseq	-0.845	0.331
B6_jason_reseq	0.201	-0.24
MHCII_jason_reseq	0.406	-0.083
Isoniazid02	-0.818	0.029
Rifampicin4	-0.095	1.218
Ethambutol3	1.608	1.379
Meropenem3	-0.131	-0.204
Vancomycin16	-0.39	0.138
Rv2680_day32	0.152	0.095
H37Rv_KO_MarP	0.222	-0.032
hypoxia_3wks	0.0	0.586
hypoxia_6wks	-0.409	0.033
glycerol	0.601	-0.777
cholesterol	0.315	0.103
AJ	0.845	1.419
Bibs02	0.18	1.146
Bibs02c	0.374	1.625
BL6	0.136	0.166
BL6a	0.373	0.931
BXD01	0.354	0.64
BXD010	0.241	0.872
BXD011	0.401	0.754
BXD03	0.367	0.688
BXD04	0.845	0.484
BXD05	1.05	0.975
BXD06	0.581	0.454
BXD07	0.207	0.737
BXD08	-0.128	0.489
BXD09	0.292	0.634
CAST	0.434	1.341
CCcont	0.507	0.168
DS01	0.33	0.83
DS02	0.0	0.791
DS04	0.347	1.136
DS0c	0.121	0.971
GP01	0.118	1.261
GP02	0.756	1.424
GP0c	-0.263	0.851
NOD	0.402	1.588
NZO	0.09	1.076
PWK	0.313	1.248
H37Rv_KO_CtpC	0.707	0.733
H37Rv_KO_CtpD	-0.06	0.806
H37Rv_KO_Rv1272	0.016	0.626
H37Rv_KO_SugABC	1.163	0.834
H37Rv_KO_MbtN	0.184	0.52
Trans05	0.308	0.986
macrophage_unactivated	-0.514	-0.966
IL1	-0.89	-1.014
Rapamycin	-1.221	-1.074
Tcell	-0.349	-1.639
GMCSF	-0.137	-0.312
IFNab	-0.907	-1.37
IFNg	-0.553	-0.612
IFNg_GMCSF1	-1.471	-0.493
Rv1432_day32	-1.159	0.533
Rv1565c_day32	-0.319	0.201
secA2_input	-0.409	0.128
delta_Rv3594	-0.563	-0.197
delta_Rv3717	-0.191	-0.185
delta_Rv3811	0.088	-0.259
delta_Rv0954	-0.048	0.474
PonA1	0.209	-0.17
EccD1_KO	0.398	0.0
EspI_KO	0.163	1.218
PE35_KO	0.627	0.718
PPE68_KO	0.554	0.294
glycerol2	0.343	-0.556
lignocerate	0.058	-0.375
oleate	0.164	-1.049
phosphatidylcholine	0.179	-0.643
acetate	-0.233	0.161
glucAc	0.295	0.276
Rv0950ko	0.0	0.292
Rv1096ko	-0.434	0.084
Rv3684ko	-0.848	-0.118
delta_otsA_trehalose	-0.485	0.38