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 Rv0752c/fadE9:

update plot	correlation	link to info on gene
Rv0727c/fucA	(cc=0.4059)	info on Rv0727c/fucA
Rv3180c/-	(cc=0.4049)	info on Rv3180c/-
Rv2219/-	(cc=0.3896)	info on Rv2219/-
Rv0278c/PE_PGRS3	(cc=0.3828)	info on Rv0278c/PE_PGRS3
Rv1352/-	(cc=0.3705)	info on Rv1352/-
Rv3653/PE_PGRS61	(cc=0.3646)	info on Rv3653/PE_PGRS61
Rv2850c/-	(cc=0.3588)	info on Rv2850c/-
Rv1087/PE_PGRS21	(cc=0.3403)	info on Rv1087/PE_PGRS21
Rv0613c/-	(cc=0.3402)	info on Rv0613c/-
Rv0794c/-	(cc=0.3388)	info on Rv0794c/-

Correlation of Rv0752c/fadE9 with Rv1352/-

Normalized LFCs for Rv0752c/fadE9:
(description and provenance of datasets)

	Rv0752c/fadE9	Rv1352/-
Fe_supp_jason_reseq	-0.129	2.019
low_pH_jason_reseq	-0.323	-0.09
NO_jason_reseq	0.053	-0.339
B6_jason_reseq	0.494	0.675
MHCII_jason_reseq	1.211	-0.018
Isoniazid02	-0.095	0.127
Rifampicin4	0.33	0.043
Ethambutol3	-0.119	-0.165
Meropenem3	0.328	0.334
Vancomycin16	0.546	0.862
Rv2680_day32	0.259	0.109
H37Rv_KO_MarP	0.502	-0.246
hypoxia_3wks	0.104	-1.077
hypoxia_6wks	0.267	-1.184
glycerol	1.295	-0.162
cholesterol	0.361	1.24
AJ	0.919	-0.884
Bibs02	0.775	0.901
Bibs02c	0.0	1.391
BL6	0.23	1.178
BL6a	0.154	0.865
BXD01	0.304	1.381
BXD010	-0.164	0.152
BXD011	0.075	0.072
BXD03	0.661	-0.095
BXD04	0.944	0.949
BXD05	-0.821	1.069
BXD06	-0.298	0.1
BXD07	0.641	1.075
BXD08	1.5	0.438
BXD09	0.027	0.191
CAST	-0.095	0.465
CCcont	0.89	1.63
DS01	0.394	0.986
DS02	0.0	0.277
DS04	1.346	0.468
DS0c	0.248	-0.826
GP01	0.577	-0.735
GP02	1.051	1.698
GP0c	0.847	0.437
NOD	-0.864	-0.044
NZO	0.367	-1.026
PWK	-0.163	-0.138
H37Rv_KO_CtpC	-0.991	-0.943
H37Rv_KO_CtpD	0.355	1.079
H37Rv_KO_Rv1272	1.131	-0.499
H37Rv_KO_SugABC	-0.502	-1.259
H37Rv_KO_MbtN	-0.49	-1.93
Trans05	0.907	-0.327
macrophage_unactivated	0.227	0.78
IL1	-0.795	-0.552
Rapamycin	1.004	0.374
Tcell	0.0	1.714
GMCSF	-0.787	-1.281
IFNab	-0.469	-1.4
IFNg	0.767	-1.122
IFNg_GMCSF1	-1.329	-1.668
Rv1432_day32	-0.338	-1.342
Rv1565c_day32	0.382	-1.69
secA2_input	0.211	0.603
delta_Rv3594	1.45	2.082
delta_Rv3717	0.123	1.397
delta_Rv3811	0.315	1.674
delta_Rv0954	0.216	-0.981
PonA1	-0.675	1.367
EccD1_KO	1.316	1.049
EspI_KO	-0.297	1.089
PE35_KO	0.0	0.615
PPE68_KO	0.544	1.302
glycerol2	0.092	2.599
lignocerate	1.218	2.813
oleate	0.508	0.624
phosphatidylcholine	0.755	2.882
acetate	0.818	2.864
glucAc	0.938	2.241
Rv0950ko	-0.519	-2.165
Rv1096ko	0.464	-0.914
Rv3684ko	0.596	-0.124
delta_otsA_trehalose	0.214	0.508