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 Rv2088/pknJ

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

	Rv3513c/fadD18	Rv2088/pknJ
Fe_supp_jason_reseq	0.587	-0.822
low_pH_jason_reseq	-1.405	0.0
NO_jason_reseq	-0.641	-0.32
B6_jason_reseq	-0.099	-0.171
MHCII_jason_reseq	0.442	0.479
Isoniazid02	0.064	-0.02
Rifampicin4	0.219	0.463
Ethambutol3	-0.258	-0.179
Meropenem3	-0.527	0.307
Vancomycin16	-0.446	0.584
Rv2680_day32	0.057	0.407
H37Rv_KO_MarP	0.079	-0.522
hypoxia_3wks	0.267	0.73
hypoxia_6wks	0.161	-0.255
glycerol	-0.006	0.206
cholesterol	-0.232	0.233
AJ	0.509	0.237
Bibs02	-0.037	-0.101
Bibs02c	0.23	0.905
BL6	-0.222	-0.555
BL6a	-0.011	0.386
BXD01	-0.413	-0.187
BXD010	-0.272	0.083
BXD011	0.209	-0.07
BXD03	0.459	-0.036
BXD04	-0.215	-0.033
BXD05	0.248	0.201
BXD06	-0.131	0.275
BXD07	-0.27	0.285
BXD08	-0.292	-0.512
BXD09	0.029	0.193
CAST	0.272	0.782
CCcont	-0.516	-0.757
DS01	0.087	-0.339
DS02	0.153	-0.345
DS04	0.333	0.659
DS0c	0.467	0.113
GP01	0.36	0.735
GP02	0.4	1.395
GP0c	0.223	0.209
NOD	-0.285	0.807
NZO	0.178	-0.166
PWK	0.728	0.0
H37Rv_KO_CtpC	0.028	-0.022
H37Rv_KO_CtpD	0.961	0.829
H37Rv_KO_Rv1272	0.155	0.841
H37Rv_KO_SugABC	0.873	1.222
H37Rv_KO_MbtN	0.055	-0.458
Trans05	0.116	0.698
macrophage_unactivated	-0.243	-0.514
IL1	-0.303	-0.116
Rapamycin	-0.5	-0.632
Tcell	-0.531	-0.531
GMCSF	0.042	0.246
IFNab	-0.109	-0.302
IFNg	-0.388	-0.104
IFNg_GMCSF1	0.17	0.06
Rv1432_day32	-0.33	0.559
Rv1565c_day32	0.34	-0.09
secA2_input	-0.149	-1.257
delta_Rv3594	-0.006	0.635
delta_Rv3717	0.118	0.341
delta_Rv3811	-0.031	0.287
delta_Rv0954	-0.119	-0.394
PonA1	0.367	0.223
EccD1_KO	-0.293	-0.51
EspI_KO	-0.405	-0.171
PE35_KO	-0.108	-0.044
PPE68_KO	-0.685	-0.048
glycerol2	0.205	-0.09
lignocerate	0.101	-0.407
oleate	0.366	0.384
phosphatidylcholine	0.22	0.0
acetate	-0.191	-0.427
glucAc	-0.026	-0.823
Rv0950ko	1.019	0.326
Rv1096ko	0.464	0.953
Rv3684ko	0.802	0.403
delta_otsA_trehalose	-1.296	-1.715