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 Rv2691/ceoB:

update plot	correlation	link to info on gene
Rv2694c/-	(cc=0.8857)	info on Rv2694c/-
Rv2692/ceoC	(cc=0.8001)	info on Rv2692/ceoC
Rv3200c/-	(cc=0.7262)	info on Rv3200c/-
Rv1364c/-	(cc=0.6764)	info on Rv1364c/-
Rv0019c/fhaB	(cc=0.5052)	info on Rv0019c/fhaB
Rv0989c/grcC2	(cc=0.489)	info on Rv0989c/grcC2
Rv3661/-	(cc=0.486)	info on Rv3661/-
Rv1807/PPE31	(cc=0.4854)	info on Rv1807/PPE31
Rv3679/-	(cc=0.485)	info on Rv3679/-
Rv1808/PPE32	(cc=0.4759)	info on Rv1808/PPE32

Correlation of Rv2691/ceoB with Rv1808/PPE32

Normalized LFCs for Rv2691/ceoB:
(description and provenance of datasets)

	Rv2691/ceoB	Rv1808/PPE32
Fe_supp_jason_reseq	1.026	-0.447
low_pH_jason_reseq	0.301	-1.273
NO_jason_reseq	-6.0	-1.979
B6_jason_reseq	-0.992	-1.203
MHCII_jason_reseq	0.56	-0.609
Isoniazid02	0.953	0.406
Rifampicin4	2.477	-0.246
Ethambutol3	0.209	-0.503
Meropenem3	0.964	-0.171
Vancomycin16	3.672	0.048
Rv2680_day32	-1.619	-0.217
H37Rv_KO_MarP	-1.672	0.164
hypoxia_3wks	-2.349	0.315
hypoxia_6wks	4.402	0.269
glycerol	0.209	1.286
cholesterol	3.009	1.71
AJ	-1.192	-0.61
Bibs02	1.628	0.768
Bibs02c	1.776	0.584
BL6	1.907	0.839
BL6a	1.669	0.824
BXD01	0.387	-0.11
BXD010	1.006	0.402
BXD011	0.961	0.343
BXD03	1.239	0.536
BXD04	0.952	0.103
BXD05	1.251	0.714
BXD06	1.068	0.561
BXD07	0.844	0.373
BXD08	0.119	0.266
BXD09	0.349	0.308
CAST	-1.855	-0.956
CCcont	1.939	0.894
DS01	3.181	1.244
DS02	3.362	0.896
DS04	2.67	1.204
DS0c	2.654	1.461
GP01	0.557	0.445
GP02	-1.009	-0.297
GP0c	1.216	0.413
NOD	-1.041	-0.459
NZO	-3.12	-2.123
PWK	-1.007	-0.53
H37Rv_KO_CtpC	1.214	0.873
H37Rv_KO_CtpD	0.975	0.862
H37Rv_KO_Rv1272	1.065	0.646
H37Rv_KO_SugABC	1.343	1.25
H37Rv_KO_MbtN	2.285	0.747
Trans05	1.547	1.311
macrophage_unactivated	1.215	0.092
IL1	-1.323	0.733
Rapamycin	-0.681	0.991
Tcell	0.443	0.499
GMCSF	-0.502	0.618
IFNab	1.164	1.128
IFNg	-0.941	0.398
IFNg_GMCSF1	-2.055	0.368
Rv1432_day32	-1.536	0.008
Rv1565c_day32	1.857	-0.581
secA2_input	-1.497	0.139
delta_Rv3594	1.106	-0.286
delta_Rv3717	0.997	-0.132
delta_Rv3811	0.495	-0.14
delta_Rv0954	-0.236	-0.336
PonA1	-0.036	-0.766
EccD1_KO	0.25	0.405
EspI_KO	0.499	0.208
PE35_KO	0.397	0.035
PPE68_KO	0.928	0.368
glycerol2	-0.929	1.737
lignocerate	-1.128	1.254
oleate	0.301	-0.23
phosphatidylcholine	-1.297	1.464
acetate	0.123	0.652
glucAc	0.409	0.587
Rv0950ko	-0.754	0.024
Rv1096ko	1.001	0.081
Rv3684ko	-0.819	-0.187
delta_otsA_trehalose	1.391	0.025