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 Rv0602c/tcrA:

update plot	correlation	link to info on gene
Rv2802c/-	(cc=0.5909)	info on Rv2802c/-
Rv0264c/-	(cc=0.5723)	info on Rv0264c/-
Rv0278c/PE_PGRS3	(cc=0.5715)	info on Rv0278c/PE_PGRS3
Rv2405/-	(cc=0.5498)	info on Rv2405/-
Rv3177/-	(cc=0.5495)	info on Rv3177/-
Rv1103c/mazE3	(cc=0.5326)	info on Rv1103c/mazE3
Rv1725c/-	(cc=0.5309)	info on Rv1725c/-
Rv3395c/-	(cc=0.5268)	info on Rv3395c/-
Rv0945/-	(cc=0.5173)	info on Rv0945/-
Rv2550c/vapB20	(cc=0.516)	info on Rv2550c/vapB20

Correlation of Rv0602c/tcrA with Rv1725c/-

Normalized LFCs for Rv0602c/tcrA:
(description and provenance of datasets)

	Rv0602c/tcrA	Rv1725c/-
Fe_supp_jason_reseq	-1.909	-0.071
low_pH_jason_reseq	-0.07	-0.852
NO_jason_reseq	-0.58	0.333
B6_jason_reseq	-0.81	-0.975
MHCII_jason_reseq	0.296	0.257
Isoniazid02	2.155	0.205
Rifampicin4	0.818	0.265
Ethambutol3	1.688	0.255
Meropenem3	0.879	0.315
Vancomycin16	0.422	-0.085
Rv2680_day32	0.835	0.205
H37Rv_KO_MarP	0.562	0.598
hypoxia_3wks	-0.231	0.0
hypoxia_6wks	-0.163	-0.136
glycerol	0.124	0.053
cholesterol	-0.809	-0.219
AJ	0.506	0.513
Bibs02	-0.556	0.0
Bibs02c	0.044	-0.194
BL6	-0.472	0.439
BL6a	0.804	-0.277
BXD01	0.041	-0.535
BXD010	0.224	-0.478
BXD011	-0.758	-0.33
BXD03	0.174	-0.407
BXD04	-0.26	-0.857
BXD05	-0.181	-0.532
BXD06	-0.425	-0.155
BXD07	-0.587	-0.332
BXD08	0.244	0.1
BXD09	-0.173	-0.632
CAST	-0.15	0.095
CCcont	0.413	-0.114
DS01	-0.128	-0.387
DS02	0.176	-1.068
DS04	0.717	0.284
DS0c	0.583	-0.214
GP01	0.984	0.065
GP02	1.533	0.381
GP0c	-0.014	-0.418
NOD	-1.137	-0.739
NZO	-1.043	0.111
PWK	-0.652	0.357
H37Rv_KO_CtpC	0.067	0.601
H37Rv_KO_CtpD	-0.662	-1.686
H37Rv_KO_Rv1272	-1.13	0.895
H37Rv_KO_SugABC	0.758	0.344
H37Rv_KO_MbtN	0.433	0.437
Trans05	0.054	-0.106
macrophage_unactivated	0.114	0.117
IL1	0.107	0.501
Rapamycin	-0.921	0.439
Tcell	-0.241	-0.485
GMCSF	-0.195	0.618
IFNab	-0.774	0.057
IFNg	-1.446	0.267
IFNg_GMCSF1	-0.54	0.531
Rv1432_day32	-1.136	-0.675
Rv1565c_day32	-0.498	-0.128
secA2_input	0.842	0.152
delta_Rv3594	0.947	0.467
delta_Rv3717	-0.133	0.535
delta_Rv3811	0.358	0.552
delta_Rv0954	1.072	1.013
PonA1	0.388	-0.111
EccD1_KO	-0.036	0.49
EspI_KO	-0.724	0.334
PE35_KO	-0.589	0.0
PPE68_KO	-1.03	0.163
glycerol2	1.655	1.223
lignocerate	2.549	1.836
oleate	-1.121	0.298
phosphatidylcholine	1.769	1.619
acetate	2.1	2.434
glucAc	2.569	2.05
Rv0950ko	-1.122	-0.235
Rv1096ko	0.555	0.537
Rv3684ko	-0.547	0.612
delta_otsA_trehalose	0.014	-1.109