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 Rv0907/-

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

	Rv0074/-	Rv0907/-
Fe_supp_jason_reseq	-0.65	-0.147
low_pH_jason_reseq	-0.172	0.284
NO_jason_reseq	-0.105	-0.507
B6_jason_reseq	-0.694	-0.417
MHCII_jason_reseq	-0.122	0.963
Isoniazid02	-0.049	1.505
Rifampicin4	0.208	-0.601
Ethambutol3	0.081	1.574
Meropenem3	0.193	0.302
Vancomycin16	0.374	0.0
Rv2680_day32	0.247	0.476
H37Rv_KO_MarP	0.329	-0.042
hypoxia_3wks	0.391	0.096
hypoxia_6wks	0.09	0.472
glycerol	-0.799	-0.05
cholesterol	-0.351	0.167
AJ	-0.067	0.413
Bibs02	-1.113	-0.339
Bibs02c	0.02	0.835
BL6	-0.761	0.248
BL6a	-0.019	0.824
BXD01	-0.212	0.583
BXD010	-0.1	0.912
BXD011	-0.152	1.083
BXD03	0.276	1.105
BXD04	0.012	0.365
BXD05	0.487	0.371
BXD06	-0.174	0.533
BXD07	-0.32	1.306
BXD08	0.609	0.881
BXD09	-0.276	0.44
CAST	-0.204	0.055
CCcont	-0.551	1.408
DS01	0.743	0.421
DS02	0.041	0.476
DS04	0.663	0.572
DS0c	0.288	0.052
GP01	0.036	0.921
GP02	0.737	0.165
GP0c	0.246	0.407
NOD	1.417	1.076
NZO	-0.709	0.588
PWK	-0.153	0.429
H37Rv_KO_CtpC	0.578	0.753
H37Rv_KO_CtpD	0.125	0.506
H37Rv_KO_Rv1272	0.311	1.76
H37Rv_KO_SugABC	1.183	1.423
H37Rv_KO_MbtN	-0.01	0.709
Trans05	1.075	0.385
macrophage_unactivated	0.051	-0.499
IL1	-0.243	-0.151
Rapamycin	-0.147	0.436
Tcell	0.629	0.463
GMCSF	0.473	0.375
IFNab	-0.508	0.496
IFNg	0.043	0.257
IFNg_GMCSF1	0.383	0.446
Rv1432_day32	-0.485	-0.094
Rv1565c_day32	-0.885	-0.539
secA2_input	-0.291	-0.188
delta_Rv3594	-0.534	0.0
delta_Rv3717	-1.155	-0.771
delta_Rv3811	-1.038	0.0
delta_Rv0954	-0.267	-0.686
PonA1	0.695	-0.032
EccD1_KO	-0.46	0.0
EspI_KO	-1.132	0.0
PE35_KO	-0.525	-0.473
PPE68_KO	-0.739	-0.63
glycerol2	-0.161	-0.241
lignocerate	-0.532	-0.019
oleate	0.047	-0.55
phosphatidylcholine	-0.531	-0.092
acetate	-0.379	0.0
glucAc	-0.549	-0.178
Rv0950ko	-0.467	0.0
Rv1096ko	0.259	0.522
Rv3684ko	-0.098	0.196
delta_otsA_trehalose	1.473	2.255