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 Rv0074/-:

update plot	correlation	link to info on gene
Rv0305c/PPE6	(cc=0.4881)	info on Rv0305c/PPE6
Rv0907/-	(cc=0.4872)	info on Rv0907/-
Rv1585c/-	(cc=0.4725)	info on Rv1585c/-
Rv0255c/cobQ1	(cc=0.4664)	info on Rv0255c/cobQ1
Rv0112/gca	(cc=0.4539)	info on Rv0112/gca
Rv3787c/-	(cc=0.4534)	info on Rv3787c/-
Rv3857c/-	(cc=0.452)	info on Rv3857c/-
Rv0822c/-	(cc=0.4427)	info on Rv0822c/-
Rv2430c/PPE41	(cc=0.4233)	info on Rv2430c/PPE41
Rv1664/pks9	(cc=0.423)	info on Rv1664/pks9

Correlation of Rv0074/- with Rv3787c/-

Normalized LFCs for Rv0074/-:
(description and provenance of datasets)

	Rv0074/-	Rv3787c/-
Fe_supp_jason_reseq	-0.65	-0.745
low_pH_jason_reseq	-0.172	-1.111
NO_jason_reseq	-0.105	-0.827
B6_jason_reseq	-0.694	-0.546
MHCII_jason_reseq	-0.122	-0.436
Isoniazid02	-0.049	-0.49
Rifampicin4	0.208	-0.225
Ethambutol3	0.081	-0.063
Meropenem3	0.193	0.018
Vancomycin16	0.374	-0.098
Rv2680_day32	0.247	-0.204
H37Rv_KO_MarP	0.329	0.577
hypoxia_3wks	0.391	0.108
hypoxia_6wks	0.09	-0.117
glycerol	-0.799	0.018
cholesterol	-0.351	-0.366
AJ	-0.067	0.624
Bibs02	-1.113	-0.462
Bibs02c	0.02	0.832
BL6	-0.761	-0.033
BL6a	-0.019	0.181
BXD01	-0.212	-0.155
BXD010	-0.1	-0.411
BXD011	-0.152	-0.133
BXD03	0.276	0.313
BXD04	0.012	0.295
BXD05	0.487	-1.01
BXD06	-0.174	0.017
BXD07	-0.32	-0.388
BXD08	0.609	-0.567
BXD09	-0.276	-0.056
CAST	-0.204	0.541
CCcont	-0.551	-0.705
DS01	0.743	0.666
DS02	0.041	0.164
DS04	0.663	0.443
DS0c	0.288	0.181
GP01	0.036	-0.61
GP02	0.737	-0.111
GP0c	0.246	0.128
NOD	1.417	-0.059
NZO	-0.709	0.068
PWK	-0.153	0.321
H37Rv_KO_CtpC	0.578	0.18
H37Rv_KO_CtpD	0.125	1.002
H37Rv_KO_Rv1272	0.311	-0.049
H37Rv_KO_SugABC	1.183	0.796
H37Rv_KO_MbtN	-0.01	0.172
Trans05	1.075	-0.451
macrophage_unactivated	0.051	-0.631
IL1	-0.243	-0.077
Rapamycin	-0.147	0.193
Tcell	0.629	-0.127
GMCSF	0.473	-0.193
IFNab	-0.508	-0.493
IFNg	0.043	-0.016
IFNg_GMCSF1	0.383	1.279
Rv1432_day32	-0.485	0.531
Rv1565c_day32	-0.885	-1.251
secA2_input	-0.291	0.376
delta_Rv3594	-0.534	-0.266
delta_Rv3717	-1.155	-0.584
delta_Rv3811	-1.038	-0.355
delta_Rv0954	-0.267	-0.075
PonA1	0.695	0.106
EccD1_KO	-0.46	-1.125
EspI_KO	-1.132	-0.904
PE35_KO	-0.525	-0.785
PPE68_KO	-0.739	-1.094
glycerol2	-0.161	-0.251
lignocerate	-0.532	-0.325
oleate	0.047	0.15
phosphatidylcholine	-0.531	-0.315
acetate	-0.379	-0.221
glucAc	-0.549	-0.88
Rv0950ko	-0.467	-0.416
Rv1096ko	0.259	-0.528
Rv3684ko	-0.098	-0.848
delta_otsA_trehalose	1.473	0.975