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 Rv2957/-:

update plot	correlation	link to info on gene
Rv3125c/PPE49	(cc=0.6276)	info on Rv3125c/PPE49
Rv1498c/-	(cc=0.5722)	info on Rv1498c/-
Rv2775/-	(cc=0.5567)	info on Rv2775/-
Rv1506c/-	(cc=0.5511)	info on Rv1506c/-
Rv1503c/-	(cc=0.551)	info on Rv1503c/-
Rv2777c/-	(cc=0.5378)	info on Rv2777c/-
Rv3142c/-	(cc=0.5116)	info on Rv3142c/-
Rv2807/-	(cc=0.5105)	info on Rv2807/-
Rv2452c/-	(cc=0.5068)	info on Rv2452c/-
Rv2428/ahpC	(cc=0.5063)	info on Rv2428/ahpC

Correlation of Rv2957/- with Rv2428/ahpC

Normalized LFCs for Rv2957/-:
(description and provenance of datasets)

	Rv2957/-	Rv2428/ahpC
Fe_supp_jason_reseq	0.507	1.287
low_pH_jason_reseq	-0.46	0.294
NO_jason_reseq	-0.018	-0.446
B6_jason_reseq	0.052	-1.052
MHCII_jason_reseq	0.319	0.076
Isoniazid02	-0.784	-3.048
Rifampicin4	0.417	-1.151
Ethambutol3	0.316	-0.327
Meropenem3	-0.769	1.373
Vancomycin16	-0.17	0.313
Rv2680_day32	0.675	0.672
H37Rv_KO_MarP	0.492	0.543
hypoxia_3wks	-0.12	0.096
hypoxia_6wks	-0.236	-0.489
glycerol	-0.018	0.385
cholesterol	-0.17	-0.338
AJ	0.171	1.062
Bibs02	-0.04	-1.142
Bibs02c	0.399	0.574
BL6	0.256	1.637
BL6a	0.131	1.769
BXD01	0.434	2.135
BXD010	0.519	1.577
BXD011	0.322	1.795
BXD03	0.536	1.146
BXD04	0.994	0.434
BXD05	0.11	1.762
BXD06	0.465	1.806
BXD07	0.422	2.663
BXD08	0.268	1.8
BXD09	0.49	2.193
CAST	0.347	1.278
CCcont	0.191	2.416
DS01	-0.123	-0.26
DS02	0.221	1.459
DS04	-0.228	-0.104
DS0c	0.358	2.077
GP01	0.782	2.67
GP02	0.576	0.194
GP0c	0.039	1.849
NOD	0.692	5.586
NZO	-0.402	-0.465
PWK	0.395	0.458
H37Rv_KO_CtpC	0.936	1.09
H37Rv_KO_CtpD	0.909	1.363
H37Rv_KO_Rv1272	1.143	3.401
H37Rv_KO_SugABC	0.842	0.189
H37Rv_KO_MbtN	0.76	0.24
Trans05	1.468	0.725
macrophage_unactivated	0.615	0.139
IL1	-0.329	-1.67
Rapamycin	-0.307	0.921
Tcell	-0.476	-0.072
GMCSF	-0.869	-0.37
IFNab	-0.115	-0.136
IFNg	0.139	0.118
IFNg_GMCSF1	-0.478	-0.361
Rv1432_day32	0.01	0.0
Rv1565c_day32	0.0	1.475
secA2_input	0.114	1.14
delta_Rv3594	0.061	-0.239
delta_Rv3717	-0.609	0.135
delta_Rv3811	0.0	-0.113
delta_Rv0954	-0.561	-0.176
PonA1	-0.38	-0.157
EccD1_KO	0.51	1.924
EspI_KO	0.853	3.645
PE35_KO	1.103	2.415
PPE68_KO	0.745	2.451
glycerol2	0.303	-0.65
lignocerate	0.247	-0.807
oleate	0.251	-0.438
phosphatidylcholine	0.356	-0.716
acetate	-0.318	1.426
glucAc	-0.209	-0.352
Rv0950ko	0.666	-0.112
Rv1096ko	-0.344	0.525
Rv3684ko	0.131	-0.933
delta_otsA_trehalose	-0.462	-2.215