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 Rv3513c/fadD18:

update plot	correlation	link to info on gene
Rv0648/-	(cc=0.4783)	info on Rv0648/-
Rv0110/-	(cc=0.4751)	info on Rv0110/-
Rv2088/pknJ	(cc=0.4742)	info on Rv2088/pknJ
Rv0194/-	(cc=0.4727)	info on Rv0194/-
Rv3026c/-	(cc=0.4533)	info on Rv3026c/-
Rv0144/-	(cc=0.4532)	info on Rv0144/-
Rv0134/ephF	(cc=0.4496)	info on Rv0134/ephF
Rv1163/narJ	(cc=0.4484)	info on Rv1163/narJ
Rv0376c/-	(cc=0.4431)	info on Rv0376c/-
Rv1533/-	(cc=0.4311)	info on Rv1533/-

Correlation of Rv3513c/fadD18 with Rv0194/-

Normalized LFCs for Rv3513c/fadD18:
(description and provenance of datasets)

	Rv3513c/fadD18	Rv0194/-
Fe_supp_jason_reseq	0.587	-0.058
low_pH_jason_reseq	-1.405	-0.393
NO_jason_reseq	-0.641	0.037
B6_jason_reseq	-0.099	-0.047
MHCII_jason_reseq	0.442	-0.046
Isoniazid02	0.064	-0.858
Rifampicin4	0.219	0.203
Ethambutol3	-0.258	-0.409
Meropenem3	-0.527	-1.028
Vancomycin16	-0.446	-0.464
Rv2680_day32	0.057	0.181
H37Rv_KO_MarP	0.079	0.456
hypoxia_3wks	0.267	0.056
hypoxia_6wks	0.161	0.115
glycerol	-0.006	0.0
cholesterol	-0.232	-0.104
AJ	0.509	0.111
Bibs02	-0.037	0.0
Bibs02c	0.23	0.035
BL6	-0.222	0.133
BL6a	-0.011	0.089
BXD01	-0.413	-0.121
BXD010	-0.272	0.049
BXD011	0.209	0.049
BXD03	0.459	-0.036
BXD04	-0.215	0.234
BXD05	0.248	-0.11
BXD06	-0.131	0.076
BXD07	-0.27	0.159
BXD08	-0.292	0.043
BXD09	0.029	-0.027
CAST	0.272	0.067
CCcont	-0.516	-0.01
DS01	0.087	-0.046
DS02	0.153	0.071
DS04	0.333	0.056
DS0c	0.467	0.481
GP01	0.36	0.584
GP02	0.4	0.367
GP0c	0.223	-0.07
NOD	-0.285	0.164
NZO	0.178	0.498
PWK	0.728	0.266
H37Rv_KO_CtpC	0.028	0.053
H37Rv_KO_CtpD	0.961	1.262
H37Rv_KO_Rv1272	0.155	-0.274
H37Rv_KO_SugABC	0.873	0.454
H37Rv_KO_MbtN	0.055	0.423
Trans05	0.116	0.303
macrophage_unactivated	-0.243	-0.016
IL1	-0.303	-0.131
Rapamycin	-0.5	-0.193
Tcell	-0.531	-0.339
GMCSF	0.042	0.063
IFNab	-0.109	0.115
IFNg	-0.388	0.051
IFNg_GMCSF1	0.17	0.148
Rv1432_day32	-0.33	0.194
Rv1565c_day32	0.34	-0.469
secA2_input	-0.149	0.025
delta_Rv3594	-0.006	-0.304
delta_Rv3717	0.118	-0.214
delta_Rv3811	-0.031	-0.173
delta_Rv0954	-0.119	-0.275
PonA1	0.367	-0.54
EccD1_KO	-0.293	-0.168
EspI_KO	-0.405	-0.362
PE35_KO	-0.108	-0.519
PPE68_KO	-0.685	-0.518
glycerol2	0.205	0.61
lignocerate	0.101	0.496
oleate	0.366	0.564
phosphatidylcholine	0.22	0.335
acetate	-0.191	0.098
glucAc	-0.026	-0.025
Rv0950ko	1.019	0.507
Rv1096ko	0.464	-0.341
Rv3684ko	0.802	0.0
delta_otsA_trehalose	-1.296	-0.205