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 Rv1163/narJ

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

	Rv3513c/fadD18	Rv1163/narJ
Fe_supp_jason_reseq	0.587	0.26
low_pH_jason_reseq	-1.405	-1.208
NO_jason_reseq	-0.641	-0.704
B6_jason_reseq	-0.099	-0.496
MHCII_jason_reseq	0.442	0.796
Isoniazid02	0.064	0.314
Rifampicin4	0.219	0.647
Ethambutol3	-0.258	0.12
Meropenem3	-0.527	-1.711
Vancomycin16	-0.446	-0.419
Rv2680_day32	0.057	0.365
H37Rv_KO_MarP	0.079	0.178
hypoxia_3wks	0.267	0.443
hypoxia_6wks	0.161	-0.038
glycerol	-0.006	0.748
cholesterol	-0.232	0.31
AJ	0.509	0.36
Bibs02	-0.037	0.901
Bibs02c	0.23	0.562
BL6	-0.222	-1.318
BL6a	-0.011	-0.023
BXD01	-0.413	-0.246
BXD010	-0.272	-0.741
BXD011	0.209	-1.038
BXD03	0.459	-0.501
BXD04	-0.215	-0.399
BXD05	0.248	-0.543
BXD06	-0.131	-0.914
BXD07	-0.27	-0.125
BXD08	-0.292	0.008
BXD09	0.029	-0.544
CAST	0.272	0.117
CCcont	-0.516	-0.325
DS01	0.087	0.171
DS02	0.153	0.317
DS04	0.333	0.742
DS0c	0.467	0.988
GP01	0.36	-0.318
GP02	0.4	0.174
GP0c	0.223	-0.592
NOD	-0.285	0.268
NZO	0.178	0.228
PWK	0.728	0.205
H37Rv_KO_CtpC	0.028	0.37
H37Rv_KO_CtpD	0.961	0.48
H37Rv_KO_Rv1272	0.155	-0.163
H37Rv_KO_SugABC	0.873	0.011
H37Rv_KO_MbtN	0.055	-1.681
Trans05	0.116	-1.221
macrophage_unactivated	-0.243	-0.868
IL1	-0.303	-0.516
Rapamycin	-0.5	-0.052
Tcell	-0.531	-1.251
GMCSF	0.042	-0.333
IFNab	-0.109	-0.961
IFNg	-0.388	-1.753
IFNg_GMCSF1	0.17	-0.672
Rv1432_day32	-0.33	0.142
Rv1565c_day32	0.34	0.046
secA2_input	-0.149	0.136
delta_Rv3594	-0.006	-0.607
delta_Rv3717	0.118	-0.565
delta_Rv3811	-0.031	-0.501
delta_Rv0954	-0.119	0.207
PonA1	0.367	0.248
EccD1_KO	-0.293	-0.474
EspI_KO	-0.405	-0.029
PE35_KO	-0.108	0.537
PPE68_KO	-0.685	0.777
glycerol2	0.205	0.153
lignocerate	0.101	0.917
oleate	0.366	0.383
phosphatidylcholine	0.22	0.798
acetate	-0.191	0.261
glucAc	-0.026	0.388
Rv0950ko	1.019	0.066
Rv1096ko	0.464	0.838
Rv3684ko	0.802	0.94
delta_otsA_trehalose	-1.296	-0.968