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 Rv0941c/-:

update plot	correlation	link to info on gene
Rv3521/-	(cc=0.5384)	info on Rv3521/-
Rv0779c/-	(cc=0.5133)	info on Rv0779c/-
Rv3265c/wbbL1	(cc=0.4732)	info on Rv3265c/wbbL1
Rv2892c/PPE45	(cc=0.4615)	info on Rv2892c/PPE45
Rv3144c/PPE52	(cc=0.4482)	info on Rv3144c/PPE52
Rv2971/-	(cc=0.4419)	info on Rv2971/-
Rv3831/-	(cc=0.4288)	info on Rv3831/-
Rv1735c/-	(cc=0.4243)	info on Rv1735c/-
Rv0765c/-	(cc=0.4096)	info on Rv0765c/-
Rv0578c/PE_PGRS7	(cc=0.4039)	info on Rv0578c/PE_PGRS7

Correlation of Rv0941c/- with Rv1735c/-

Normalized LFCs for Rv0941c/-:
(description and provenance of datasets)

	Rv0941c/-	Rv1735c/-
Fe_supp_jason_reseq	-0.985	-1.307
low_pH_jason_reseq	-0.522	-0.656
NO_jason_reseq	0.302	0.118
B6_jason_reseq	-0.074	-1.084
MHCII_jason_reseq	-0.103	0.265
Isoniazid02	0.604	1.275
Rifampicin4	0.579	0.501
Ethambutol3	0.759	0.916
Meropenem3	0.357	0.264
Vancomycin16	1.021	0.716
Rv2680_day32	-0.36	0.0
H37Rv_KO_MarP	0.426	0.559
hypoxia_3wks	0.327	0.578
hypoxia_6wks	0.013	-1.825
glycerol	0.527	-1.444
cholesterol	0.182	-1.572
AJ	-0.057	0.104
Bibs02	0.936	-0.66
Bibs02c	-0.496	-0.571
BL6	0.184	-2.2
BL6a	-0.1	-2.426
BXD01	0.573	-1.284
BXD010	0.679	-2.074
BXD011	0.543	-1.905
BXD03	0.116	-1.656
BXD04	-0.248	0.0
BXD05	0.53	-1.264
BXD06	0.327	-2.221
BXD07	0.174	-2.304
BXD08	0.172	-0.976
BXD09	0.107	-1.64
CAST	-0.277	0.337
CCcont	0.065	-2.554
DS01	0.0	-0.703
DS02	0.774	0.928
DS04	0.878	1.665
DS0c	0.262	-0.102
GP01	0.175	1.249
GP02	0.951	1.619
GP0c	0.503	-0.126
NOD	0.231	0.347
NZO	0.409	-1.319
PWK	-0.465	0.688
H37Rv_KO_CtpC	0.108	0.623
H37Rv_KO_CtpD	0.898	-1.945
H37Rv_KO_Rv1272	1.642	0.834
H37Rv_KO_SugABC	0.765	-0.844
H37Rv_KO_MbtN	-0.947	-1.715
Trans05	1.07	-0.114
macrophage_unactivated	-0.051	-2.273
IL1	-0.047	-3.283
Rapamycin	-0.359	-3.069
Tcell	0.684	-2.076
GMCSF	0.536	-2.778
IFNab	-0.354	-3.694
IFNg	0.39	-2.536
IFNg_GMCSF1	-0.182	-2.13
Rv1432_day32	-0.262	0.0
Rv1565c_day32	0.889	1.238
secA2_input	0.672	-0.429
delta_Rv3594	0.366	-0.832
delta_Rv3717	0.545	0.165
delta_Rv3811	0.626	-0.61
delta_Rv0954	0.559	-1.499
PonA1	0.089	0.092
EccD1_KO	0.335	0.793
EspI_KO	0.468	-0.394
PE35_KO	0.709	0.435
PPE68_KO	0.736	1.901
glycerol2	-0.006	-0.787
lignocerate	-0.16	-1.162
oleate	-0.186	-0.32
phosphatidylcholine	0.069	-0.56
acetate	-0.703	-1.993
glucAc	-0.533	-2.721
Rv0950ko	1.269	1.001
Rv1096ko	1.004	1.454
Rv3684ko	0.907	1.15
delta_otsA_trehalose	0.811	0.564