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 Rv3180c/-

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

	Rv0752c/fadE9	Rv3180c/-
Fe_supp_jason_reseq	-0.129	-1.722
low_pH_jason_reseq	-0.323	-0.51
NO_jason_reseq	0.053	0.572
B6_jason_reseq	0.494	-0.272
MHCII_jason_reseq	1.211	1.065
Isoniazid02	-0.095	0.908
Rifampicin4	0.33	1.134
Ethambutol3	-0.119	0.601
Meropenem3	0.328	0.962
Vancomycin16	0.546	0.191
Rv2680_day32	0.259	0.503
H37Rv_KO_MarP	0.502	0.49
hypoxia_3wks	0.104	-0.335
hypoxia_6wks	0.267	-0.395
glycerol	1.295	0.562
cholesterol	0.361	-0.602
AJ	0.919	-0.536
Bibs02	0.775	0.429
Bibs02c	0.0	0.682
BL6	0.23	-0.55
BL6a	0.154	-0.08
BXD01	0.304	-0.097
BXD010	-0.164	-1.343
BXD011	0.075	-0.576
BXD03	0.661	-2.341
BXD04	0.944	-1.41
BXD05	-0.821	-0.693
BXD06	-0.298	-1.69
BXD07	0.641	-0.696
BXD08	1.5	0.588
BXD09	0.027	-0.312
CAST	-0.095	-0.355
CCcont	0.89	-0.189
DS01	0.394	0.878
DS02	0.0	1.289
DS04	1.346	1.244
DS0c	0.248	1.648
GP01	0.577	-0.483
GP02	1.051	-1.123
GP0c	0.847	-0.739
NOD	-0.864	-1.645
NZO	0.367	-0.461
PWK	-0.163	-1.199
H37Rv_KO_CtpC	-0.991	-1.931
H37Rv_KO_CtpD	0.355	0.618
H37Rv_KO_Rv1272	1.131	-1.01
H37Rv_KO_SugABC	-0.502	-1.526
H37Rv_KO_MbtN	-0.49	-1.828
Trans05	0.907	0.091
macrophage_unactivated	0.227	0.174
IL1	-0.795	-3.135
Rapamycin	1.004	0.169
Tcell	0.0	-0.45
GMCSF	-0.787	-3.72
IFNab	-0.469	-3.196
IFNg	0.767	-1.227
IFNg_GMCSF1	-1.329	-1.056
Rv1432_day32	-0.338	0.0
Rv1565c_day32	0.382	0.927
secA2_input	0.211	-0.473
delta_Rv3594	1.45	0.561
delta_Rv3717	0.123	0.0
delta_Rv3811	0.315	0.981
delta_Rv0954	0.216	1.078
PonA1	-0.675	0.515
EccD1_KO	1.316	-0.401
EspI_KO	-0.297	-0.69
PE35_KO	0.0	-1.706
PPE68_KO	0.544	-1.705
glycerol2	0.092	0.074
lignocerate	1.218	-0.09
oleate	0.508	0.373
phosphatidylcholine	0.755	0.368
acetate	0.818	0.256
glucAc	0.938	0.392
Rv0950ko	-0.519	0.479
Rv1096ko	0.464	1.668
Rv3684ko	0.596	0.468
delta_otsA_trehalose	0.214	-0.915