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 Rv0441c/-:

update plot	correlation	link to info on gene
Rv1057/-	(cc=0.622)	info on Rv1057/-
Rv2848c/cobB	(cc=0.5352)	info on Rv2848c/cobB
Rv2307D/-	(cc=0.4972)	info on Rv2307D/-
Rv1376/-	(cc=0.4967)	info on Rv1376/-
Rv2240c/-	(cc=0.4943)	info on Rv2240c/-
Rv1846c/blaI	(cc=0.4932)	info on Rv1846c/blaI
Rv3091/-	(cc=0.4882)	info on Rv3091/-
Rv0870c/-	(cc=0.4872)	info on Rv0870c/-
Rv0442c/PPE10	(cc=0.4824)	info on Rv0442c/PPE10
Rv3605c/-	(cc=0.4778)	info on Rv3605c/-

Correlation of Rv0441c/- with Rv1057/-

Normalized LFCs for Rv0441c/-:
(description and provenance of datasets)

	Rv0441c/-	Rv1057/-
Fe_supp_jason_reseq	0.071	-0.014
low_pH_jason_reseq	-0.806	0.186
NO_jason_reseq	0.231	0.423
B6_jason_reseq	0.263	0.318
MHCII_jason_reseq	0.644	0.133
Isoniazid02	0.052	0.026
Rifampicin4	-0.152	-0.777
Ethambutol3	0.901	1.098
Meropenem3	-0.161	-0.067
Vancomycin16	0.584	-0.424
Rv2680_day32	-1.157	-1.83
H37Rv_KO_MarP	1.523	0.752
hypoxia_3wks	-0.427	-0.941
hypoxia_6wks	-0.593	-0.382
glycerol	0.0	0.161
cholesterol	-0.235	0.434
AJ	-0.358	-0.049
Bibs02	-0.339	0.419
Bibs02c	0.735	-0.062
BL6	-0.034	-0.023
BL6a	0.323	-0.281
BXD01	-1.479	-0.522
BXD010	-0.67	-0.647
BXD011	1.087	-0.057
BXD03	-1.188	-0.429
BXD04	-0.996	-0.154
BXD05	-0.634	-0.879
BXD06	-0.217	-0.575
BXD07	-1.304	-0.423
BXD08	-0.8	-0.162
BXD09	-0.59	-0.43
CAST	0.16	0.287
CCcont	-0.36	-0.427
DS01	0.062	0.027
DS02	0.844	0.038
DS04	-0.256	-0.006
DS0c	0.057	0.167
GP01	0.477	0.624
GP02	1.207	0.614
GP0c	0.241	-0.275
NOD	-0.029	0.129
NZO	-0.763	-0.121
PWK	0.075	-0.053
H37Rv_KO_CtpC	-0.474	-0.51
H37Rv_KO_CtpD	0.409	0.223
H37Rv_KO_Rv1272	-0.364	-0.795
H37Rv_KO_SugABC	-1.385	-0.825
H37Rv_KO_MbtN	-0.86	-0.332
Trans05	-1.459	-0.736
macrophage_unactivated	0.559	0.35
IL1	0.074	0.062
Rapamycin	1.025	0.488
Tcell	-0.081	-0.485
GMCSF	1.233	0.356
IFNab	1.158	-0.33
IFNg	0.839	-0.086
IFNg_GMCSF1	2.228	0.066
Rv1432_day32	1.949	0.521
Rv1565c_day32	0.33	0.118
secA2_input	0.153	0.41
delta_Rv3594	-0.915	-0.109
delta_Rv3717	-0.638	-0.31
delta_Rv3811	-0.754	-0.644
delta_Rv0954	-0.704	0.271
PonA1	0.23	0.105
EccD1_KO	1.411	0.585
EspI_KO	0.819	0.838
PE35_KO	0.47	0.163
PPE68_KO	0.384	0.336
glycerol2	0.56	0.645
lignocerate	0.773	1.097
oleate	0.207	-0.265
phosphatidylcholine	0.28	0.873
acetate	1.022	0.397
glucAc	0.985	0.369
Rv0950ko	0.326	-0.045
Rv1096ko	0.03	0.0
Rv3684ko	-0.495	0.295
delta_otsA_trehalose	0.906	1.013