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 Rv3894c/eccC2:

update plot	correlation	link to info on gene
Rv3835/-	(cc=0.4942)	info on Rv3835/-
Rv3278c/-	(cc=0.4824)	info on Rv3278c/-
Rv3813c/-	(cc=0.4779)	info on Rv3813c/-
Rv3762c/-	(cc=0.477)	info on Rv3762c/-
Rv2430c/PPE41	(cc=0.4635)	info on Rv2430c/PPE41
Rv0930/pstA1	(cc=0.4593)	info on Rv0930/pstA1
Rv3529c/-	(cc=0.458)	info on Rv3529c/-
Rv0051/-	(cc=0.4536)	info on Rv0051/-
Rv0820/phoT	(cc=0.4525)	info on Rv0820/phoT
Rv3470c/ilvB2	(cc=0.4522)	info on Rv3470c/ilvB2

Correlation of Rv3894c/eccC2 with Rv3813c/-

Normalized LFCs for Rv3894c/eccC2:
(description and provenance of datasets)

	Rv3894c/eccC2	Rv3813c/-
Fe_supp_jason_reseq	0.182	0.3
low_pH_jason_reseq	0.303	-0.038
NO_jason_reseq	-0.578	-2.51
B6_jason_reseq	-0.26	-0.026
MHCII_jason_reseq	-0.243	0.512
Isoniazid02	-0.159	-1.368
Rifampicin4	-0.333	0.122
Ethambutol3	0.435	0.699
Meropenem3	0.077	0.422
Vancomycin16	-0.069	0.313
Rv2680_day32	-0.238	-1.196
H37Rv_KO_MarP	0.384	0.253
hypoxia_3wks	-0.092	-0.307
hypoxia_6wks	-0.023	-0.161
glycerol	-0.196	1.463
cholesterol	1.401	1.219
AJ	0.376	0.324
Bibs02	0.017	0.481
Bibs02c	-0.267	-0.735
BL6	0.556	1.095
BL6a	0.353	1.172
BXD01	0.126	1.298
BXD010	0.343	1.134
BXD011	0.429	1.773
BXD03	0.61	1.281
BXD04	0.946	1.082
BXD05	0.436	1.578
BXD06	0.57	1.521
BXD07	0.475	1.197
BXD08	0.403	0.913
BXD09	0.396	1.479
CAST	-0.224	0.898
CCcont	0.794	0.819
DS01	-0.277	1.001
DS02	0.52	0.441
DS04	0.33	1.148
DS0c	0.229	1.431
GP01	0.027	2.51
GP02	0.47	0.152
GP0c	0.126	1.05
NOD	0.727	-0.869
NZO	0.143	-0.264
PWK	0.271	1.321
H37Rv_KO_CtpC	0.327	0.985
H37Rv_KO_CtpD	0.091	-0.319
H37Rv_KO_Rv1272	0.16	1.039
H37Rv_KO_SugABC	-0.126	2.782
H37Rv_KO_MbtN	0.91	0.68
Trans05	0.717	-1.013
macrophage_unactivated	0.028	-1.809
IL1	-0.403	-1.981
Rapamycin	-0.264	-2.237
Tcell	-0.121	-1.245
GMCSF	-0.333	-1.764
IFNab	0.163	-1.01
IFNg	-0.23	-0.422
IFNg_GMCSF1	-0.028	-0.905
Rv1432_day32	-0.242	-0.394
Rv1565c_day32	-0.076	1.044
secA2_input	0.166	0.773
delta_Rv3594	-0.431	-0.459
delta_Rv3717	-0.25	0.088
delta_Rv3811	-0.44	0.457
delta_Rv0954	0.428	0.09
PonA1	0.129	0.354
EccD1_KO	-0.431	-1.164
EspI_KO	-0.665	-0.684
PE35_KO	-0.382	-1.951
PPE68_KO	-0.451	-1.635
glycerol2	0.314	0.034
lignocerate	0.324	-0.091
oleate	-0.133	-0.695
phosphatidylcholine	-0.057	-0.459
acetate	0.098	-0.597
glucAc	0.0	0.0
Rv0950ko	0.612	0.7
Rv1096ko	0.902	0.202
Rv3684ko	0.291	0.563
delta_otsA_trehalose	-0.398	-0.506