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 Rv0593/lprL:

update plot	correlation	link to info on gene
Rv0376c/-	(cc=0.5537)	info on Rv0376c/-
Rv3538/-	(cc=0.5441)	info on Rv3538/-
Rv2208/cobS	(cc=0.5304)	info on Rv2208/cobS
Rv2841c/nusA	(cc=0.5062)	info on Rv2841c/nusA
Rv1160/mutT2	(cc=0.504)	info on Rv1160/mutT2
Rv0995/rimJ	(cc=0.5012)	info on Rv0995/rimJ
Rv1198/esxL	(cc=0.4946)	info on Rv1198/esxL
Rv0648/-	(cc=0.4901)	info on Rv0648/-
Rv3731/ligC	(cc=0.4768)	info on Rv3731/ligC
Rv3756c/proZ	(cc=0.4725)	info on Rv3756c/proZ

Correlation of Rv0593/lprL with Rv0648/-

Normalized LFCs for Rv0593/lprL:
(description and provenance of datasets)

	Rv0593/lprL	Rv0648/-
Fe_supp_jason_reseq	-0.45	-0.423
low_pH_jason_reseq	0.417	-0.159
NO_jason_reseq	-0.131	-0.06
B6_jason_reseq	-0.22	0.75
MHCII_jason_reseq	0.047	0.848
Isoniazid02	-1.807	0.311
Rifampicin4	-0.655	0.485
Ethambutol3	1.285	0.174
Meropenem3	-0.883	0.625
Vancomycin16	-1.257	-0.077
Rv2680_day32	-0.24	0.089
H37Rv_KO_MarP	0.069	0.251
hypoxia_3wks	-0.271	0.124
hypoxia_6wks	-0.407	0.127
glycerol	0.331	1.027
cholesterol	0.866	0.486
AJ	0.432	0.624
Bibs02	-0.049	0.148
Bibs02c	0.693	0.374
BL6	-0.525	0.278
BL6a	0.152	-0.053
BXD01	-0.617	-0.387
BXD010	-0.423	-0.353
BXD011	-0.331	-0.149
BXD03	-0.447	-0.036
BXD04	0.0	-0.124
BXD05	0.035	0.102
BXD06	-0.425	-0.164
BXD07	-0.441	-0.154
BXD08	-0.361	0.055
BXD09	-0.365	-0.341
CAST	0.234	0.454
CCcont	-0.227	-0.201
DS01	-0.265	0.756
DS02	0.87	0.548
DS04	0.067	1.15
DS0c	0.514	0.492
GP01	-0.009	0.365
GP02	0.386	0.819
GP0c	0.193	0.238
NOD	0.135	0.5
NZO	0.137	0.426
PWK	0.533	0.253
H37Rv_KO_CtpC	-0.441	-0.331
H37Rv_KO_CtpD	-0.896	0.762
H37Rv_KO_Rv1272	-0.158	-0.371
H37Rv_KO_SugABC	0.592	0.753
H37Rv_KO_MbtN	0.105	-0.022
Trans05	-0.713	0.034
macrophage_unactivated	-1.177	-0.603
IL1	-0.261	0.314
Rapamycin	-0.509	-0.193
Tcell	-0.593	-0.622
GMCSF	-0.153	0.211
IFNab	-0.701	0.042
IFNg	-1.096	-0.305
IFNg_GMCSF1	-0.946	0.022
Rv1432_day32	-0.933	-0.242
Rv1565c_day32	0.212	0.27
secA2_input	1.188	0.969
delta_Rv3594	0.352	0.754
delta_Rv3717	0.668	0.673
delta_Rv3811	0.364	0.344
delta_Rv0954	0.355	0.098
PonA1	0.448	0.188
EccD1_KO	-0.181	0.437
EspI_KO	-0.898	-0.094
PE35_KO	-0.458	-0.324
PPE68_KO	-0.957	-0.47
glycerol2	0.531	0.154
lignocerate	0.933	0.639
oleate	0.099	0.237
phosphatidylcholine	0.606	0.282
acetate	0.75	0.387
glucAc	0.588	0.468
Rv0950ko	0.434	0.386
Rv1096ko	0.832	1.276
Rv3684ko	0.851	0.108
delta_otsA_trehalose	-0.118	-0.912