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 Rv1911c/lppC:

update plot	correlation	link to info on gene
Rv1664/pks9	(cc=0.5326)	info on Rv1664/pks9
Rv1947/-	(cc=0.5261)	info on Rv1947/-
Rv0582/vapC26	(cc=0.5036)	info on Rv0582/vapC26
Rv2345/-	(cc=0.4809)	info on Rv2345/-
Rv2390c/-	(cc=0.4733)	info on Rv2390c/-
Rv2791c/-	(cc=0.4693)	info on Rv2791c/-
Rv1176c/-	(cc=0.4633)	info on Rv1176c/-
Rv3305c/amiA1	(cc=0.457)	info on Rv3305c/amiA1
Rv3116/moeB2	(cc=0.4544)	info on Rv3116/moeB2
Rv1488/-	(cc=0.4502)	info on Rv1488/-

Correlation of Rv1911c/lppC with Rv2345/-

Normalized LFCs for Rv1911c/lppC:
(description and provenance of datasets)

	Rv1911c/lppC	Rv2345/-
Fe_supp_jason_reseq	0.911	-0.019
low_pH_jason_reseq	-1.978	-0.962
NO_jason_reseq	0.189	-0.053
B6_jason_reseq	0.318	-0.063
MHCII_jason_reseq	0.093	0.065
Isoniazid02	-2.306	-1.199
Rifampicin4	0.677	0.509
Ethambutol3	-1.944	-1.019
Meropenem3	-2.187	-1.409
Vancomycin16	-0.47	-0.655
Rv2680_day32	0.031	-0.466
H37Rv_KO_MarP	-0.272	-0.02
hypoxia_3wks	0.467	0.032
hypoxia_6wks	-0.879	0.257
glycerol	-0.08	0.192
cholesterol	0.127	-0.086
AJ	-0.866	0.0
Bibs02	-0.123	-0.278
Bibs02c	-0.941	-0.205
BL6	-0.12	0.138
BL6a	0.399	0.118
BXD01	-0.088	0.14
BXD010	-0.996	0.141
BXD011	0.215	-0.262
BXD03	0.75	-0.04
BXD04	0.063	0.291
BXD05	0.725	0.374
BXD06	0.75	0.147
BXD07	0.203	0.238
BXD08	0.587	0.434
BXD09	0.632	0.199
CAST	0.512	-0.225
CCcont	-0.23	0.024
DS01	-0.63	0.0
DS02	-1.752	-0.498
DS04	-0.55	-0.142
DS0c	-0.891	-0.057
GP01	1.112	0.277
GP02	-1.084	0.072
GP0c	-0.325	0.147
NOD	-1.15	0.265
NZO	-1.065	-0.237
PWK	0.287	-0.058
H37Rv_KO_CtpC	0.54	0.373
H37Rv_KO_CtpD	1.131	0.605
H37Rv_KO_Rv1272	1.898	0.291
H37Rv_KO_SugABC	0.178	0.767
H37Rv_KO_MbtN	-0.921	0.628
Trans05	0.434	0.501
macrophage_unactivated	-0.767	-0.114
IL1	0.065	0.338
Rapamycin	0.393	0.473
Tcell	-0.541	0.039
GMCSF	0.367	0.599
IFNab	0.166	0.311
IFNg	-0.615	0.216
IFNg_GMCSF1	-0.141	0.182
Rv1432_day32	0.776	0.194
Rv1565c_day32	0.809	0.175
secA2_input	0.348	0.233
delta_Rv3594	-0.289	0.271
delta_Rv3717	-0.034	0.055
delta_Rv3811	-0.686	0.352
delta_Rv0954	-0.525	0.371
PonA1	-0.165	-0.321
EccD1_KO	-1.832	0.704
EspI_KO	-1.209	0.767
PE35_KO	-0.589	0.429
PPE68_KO	-0.896	0.176
glycerol2	-0.873	0.277
lignocerate	-0.997	0.284
oleate	-0.064	0.702
phosphatidylcholine	-0.602	0.153
acetate	-1.637	-0.462
glucAc	-1.359	-0.232
Rv0950ko	-2.096	0.434
Rv1096ko	-2.096	-0.567
Rv3684ko	-0.966	-0.54
delta_otsA_trehalose	0.965	0.582