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 Rv0912/-:

update plot	correlation	link to info on gene
Rv1128c/-	(cc=0.5522)	info on Rv1128c/-
Rv2857c/-	(cc=0.4605)	info on Rv2857c/-
Rv1664/pks9	(cc=0.4585)	info on Rv1664/pks9
Rv1252c/lprE	(cc=0.458)	info on Rv1252c/lprE
Rv1496/-	(cc=0.4551)	info on Rv1496/-
Rv3036c/TB22.2	(cc=0.4456)	info on Rv3036c/TB22.2
Rv0844c/narL	(cc=0.4401)	info on Rv0844c/narL
Rv0460/-	(cc=0.4316)	info on Rv0460/-
Rv0478/deoC	(cc=0.4299)	info on Rv0478/deoC
Rv1269c/-	(cc=0.4219)	info on Rv1269c/-

Correlation of Rv0912/- with Rv1128c/-

Normalized LFCs for Rv0912/-:
(description and provenance of datasets)

	Rv0912/-	Rv1128c/-
Fe_supp_jason_reseq	1.23	1.403
low_pH_jason_reseq	-0.716	0.254
NO_jason_reseq	-2.145	-1.137
B6_jason_reseq	-1.293	-0.403
MHCII_jason_reseq	1.3	-0.355
Isoniazid02	1.927	0.175
Rifampicin4	1.026	0.325
Ethambutol3	-0.261	0.074
Meropenem3	0.715	0.4
Vancomycin16	1.239	0.753
Rv2680_day32	1.974	0.715
H37Rv_KO_MarP	-1.29	0.467
hypoxia_3wks	0.1	0.371
hypoxia_6wks	-0.555	0.0
glycerol	0.638	-0.168
cholesterol	0.719	-0.475
AJ	0.313	0.578
Bibs02	-1.44	-0.234
Bibs02c	-1.647	-0.805
BL6	2.355	0.312
BL6a	0.405	0.364
BXD01	1.431	0.994
BXD010	0.86	0.435
BXD011	0.026	0.396
BXD03	-1.254	0.053
BXD04	0.705	1.334
BXD05	1.693	0.675
BXD06	0.249	0.566
BXD07	1.32	1.608
BXD08	0.249	1.091
BXD09	0.214	0.838
CAST	-1.278	-0.192
CCcont	1.774	0.592
DS01	-0.099	0.589
DS02	0.129	-0.279
DS04	-0.883	0.659
DS0c	2.305	0.0
GP01	2.025	0.961
GP02	3.073	0.064
GP0c	2.29	1.224
NOD	-0.63	-0.093
NZO	-0.845	0.433
PWK	0.078	0.489
H37Rv_KO_CtpC	1.494	1.005
H37Rv_KO_CtpD	3.216	1.504
H37Rv_KO_Rv1272	1.694	1.373
H37Rv_KO_SugABC	-1.2	-0.127
H37Rv_KO_MbtN	0.211	0.936
Trans05	0.615	1.784
macrophage_unactivated	2.383	2.235
IL1	1.824	0.658
Rapamycin	0.915	2.081
Tcell	-0.049	1.235
GMCSF	1.97	1.869
IFNab	1.708	1.769
IFNg	1.227	0.911
IFNg_GMCSF1	0.273	0.952
Rv1432_day32	0.875	-0.439
Rv1565c_day32	0.0	-0.196
secA2_input	-0.238	0.839
delta_Rv3594	-0.154	0.867
delta_Rv3717	-0.038	-0.068
delta_Rv3811	-0.863	0.226
delta_Rv0954	-3.64	-0.655
PonA1	-1.319	-0.34
EccD1_KO	-0.125	-0.753
EspI_KO	-0.163	-0.248
PE35_KO	-0.195	-0.388
PPE68_KO	-0.374	-0.278
glycerol2	0.036	-0.053
lignocerate	-0.144	-0.095
oleate	-0.485	0.052
phosphatidylcholine	-0.151	-0.053
acetate	-0.662	-0.607
glucAc	-0.308	-1.073
Rv0950ko	0.0	-0.546
Rv1096ko	1.279	0.814
Rv3684ko	2.414	0.648
delta_otsA_trehalose	0.678	-0.965