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 Rv3776/-:

update plot	correlation	link to info on gene
Rv2414c/-	(cc=0.4834)	info on Rv2414c/-
Rv3665c/dppB	(cc=0.4675)	info on Rv3665c/dppB
Rv1177/fdxC	(cc=0.4484)	info on Rv1177/fdxC
Rv2693c/-	(cc=0.4458)	info on Rv2693c/-
Rv2149c/yfiH	(cc=0.4366)	info on Rv2149c/yfiH
Rv2265/-	(cc=0.4215)	info on Rv2265/-
Rv0836c/-	(cc=0.4204)	info on Rv0836c/-
Rv3440c/-	(cc=0.414)	info on Rv3440c/-
Rv1944c/-	(cc=0.4056)	info on Rv1944c/-
Rv0209/-	(cc=0.4034)	info on Rv0209/-

Correlation of Rv3776/- with Rv2414c/-

Normalized LFCs for Rv3776/-:
(description and provenance of datasets)

	Rv3776/-	Rv2414c/-
Fe_supp_jason_reseq	-0.406	0.0
low_pH_jason_reseq	1.193	0.187
NO_jason_reseq	0.034	0.407
B6_jason_reseq	-0.219	-0.031
MHCII_jason_reseq	-0.207	0.25
Isoniazid02	0.655	1.001
Rifampicin4	-0.255	0.812
Ethambutol3	1.284	1.818
Meropenem3	-0.35	-0.316
Vancomycin16	-0.186	0.857
Rv2680_day32	0.307	-1.145
H37Rv_KO_MarP	0.316	0.459
hypoxia_3wks	-0.271	-0.538
hypoxia_6wks	-0.468	-0.171
glycerol	0.12	0.819
cholesterol	-0.169	0.487
AJ	0.282	0.22
Bibs02	0.642	-0.54
Bibs02c	0.67	0.587
BL6	0.355	0.273
BL6a	0.263	0.495
BXD01	0.235	-0.026
BXD010	-0.444	-0.986
BXD011	-0.327	-0.28
BXD03	-0.009	-0.763
BXD04	0.503	-0.902
BXD05	-0.042	-0.231
BXD06	-0.213	-0.352
BXD07	-0.182	-0.042
BXD08	0.198	0.442
BXD09	-0.339	-0.406
CAST	0.404	0.33
CCcont	0.173	-0.265
DS01	0.438	0.234
DS02	0.912	0.619
DS04	0.485	0.566
DS0c	0.625	0.156
GP01	0.849	0.423
GP02	1.226	-0.148
GP0c	0.624	0.487
NOD	0.867	0.322
NZO	0.221	0.419
PWK	0.139	0.132
H37Rv_KO_CtpC	0.351	0.868
H37Rv_KO_CtpD	0.406	0.97
H37Rv_KO_Rv1272	-0.244	0.202
H37Rv_KO_SugABC	0.436	0.518
H37Rv_KO_MbtN	1.29	1.534
Trans05	0.187	0.346
macrophage_unactivated	-0.139	-0.846
IL1	0.273	0.282
Rapamycin	0.331	0.236
Tcell	0.14	-0.684
GMCSF	0.024	0.251
IFNab	0.051	-0.287
IFNg	-0.069	-0.358
IFNg_GMCSF1	0.239	0.242
Rv1432_day32	0.716	0.306
Rv1565c_day32	0.46	0.092
secA2_input	0.668	0.723
delta_Rv3594	-0.541	0.092
delta_Rv3717	-0.22	-0.959
delta_Rv3811	-0.541	0.04
delta_Rv0954	-0.052	-0.295
PonA1	-0.172	0.353
EccD1_KO	-0.247	-0.293
EspI_KO	-0.764	0.185
PE35_KO	-0.26	0.096
PPE68_KO	-0.397	-0.195
glycerol2	0.182	0.121
lignocerate	0.274	0.247
oleate	0.133	0.771
phosphatidylcholine	0.22	0.643
acetate	0.126	-0.489
glucAc	0.059	-0.367
Rv0950ko	0.419	0.241
Rv1096ko	0.127	0.881
Rv3684ko	0.219	1.153
delta_otsA_trehalose	-1.085	-1.373