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 Rv3064c/-:

update plot	correlation	link to info on gene
Rv0281/-	(cc=0.4621)	info on Rv0281/-
Rv3321c/vapB44	(cc=0.4512)	info on Rv3321c/vapB44
Rv3468c/-	(cc=0.4473)	info on Rv3468c/-
Rv0997/-	(cc=0.4449)	info on Rv0997/-
Rv2689c/-	(cc=0.4438)	info on Rv2689c/-
Rv2575/-	(cc=0.4329)	info on Rv2575/-
Rv0442c/PPE10	(cc=0.432)	info on Rv0442c/PPE10
Rv1562c/treZ	(cc=0.4305)	info on Rv1562c/treZ
Rv3819/-	(cc=0.4286)	info on Rv3819/-
Rv2463/lipP	(cc=0.4163)	info on Rv2463/lipP

Correlation of Rv3064c/- with Rv0997/-

Normalized LFCs for Rv3064c/-:
(description and provenance of datasets)

	Rv3064c/-	Rv0997/-
Fe_supp_jason_reseq	-0.497	0.099
low_pH_jason_reseq	-0.074	0.271
NO_jason_reseq	0.194	0.357
B6_jason_reseq	-0.165	-0.132
MHCII_jason_reseq	-0.668	-1.172
Isoniazid02	0.374	0.045
Rifampicin4	0.485	-0.03
Ethambutol3	1.597	4.01
Meropenem3	0.156	1.46
Vancomycin16	0.379	0.082
Rv2680_day32	0.261	2.077
H37Rv_KO_MarP	0.509	-0.093
hypoxia_3wks	-0.355	-0.163
hypoxia_6wks	-0.699	-0.355
glycerol	-0.288	-0.303
cholesterol	0.041	-0.495
AJ	0.055	-0.716
Bibs02	-0.282	0.572
Bibs02c	-0.071	0.635
BL6	0.312	0.98
BL6a	0.11	1.082
BXD01	0.424	0.542
BXD010	0.106	0.676
BXD011	0.176	0.297
BXD03	0.081	1.221
BXD04	0.39	0.007
BXD05	0.429	0.846
BXD06	0.333	0.459
BXD07	0.431	0.553
BXD08	1.596	0.824
BXD09	0.65	0.792
CAST	-0.182	-0.846
CCcont	0.194	0.939
DS01	0.356	-0.474
DS02	-0.011	-0.403
DS04	0.684	2.103
DS0c	-0.754	-1.163
GP01	-0.324	-2.665
GP02	0.247	-0.931
GP0c	-0.74	-2.795
NOD	0.747	0.556
NZO	-0.107	0.197
PWK	-0.038	-0.898
H37Rv_KO_CtpC	-0.015	2.169
H37Rv_KO_CtpD	0.094	0.826
H37Rv_KO_Rv1272	0.45	-0.954
H37Rv_KO_SugABC	0.748	1.299
H37Rv_KO_MbtN	0.295	0.992
Trans05	-0.322	-0.09
macrophage_unactivated	-0.095	0.644
IL1	-0.421	0.86
Rapamycin	-0.47	1.519
Tcell	0.016	1.02
GMCSF	1.22	0.948
IFNab	-0.03	0.42
IFNg	0.067	0.059
IFNg_GMCSF1	-0.786	0.113
Rv1432_day32	0.034	0.532
Rv1565c_day32	2.243	2.191
secA2_input	-0.246	-0.315
delta_Rv3594	-0.177	1.159
delta_Rv3717	-0.588	0.586
delta_Rv3811	-0.467	0.519
delta_Rv0954	-0.363	0.079
PonA1	-0.37	-0.78
EccD1_KO	-0.099	0.783
EspI_KO	-0.513	0.194
PE35_KO	-0.07	-0.452
PPE68_KO	0.019	-0.346
glycerol2	0.416	2.085
lignocerate	0.608	3.07
oleate	0.346	-1.704
phosphatidylcholine	0.706	2.506
acetate	0.672	3.464
glucAc	1.074	3.516
Rv0950ko	0.196	0.781
Rv1096ko	-0.045	-0.127
Rv3684ko	0.295	-1.208
delta_otsA_trehalose	2.722	-0.218