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 Rv1362c/-:

update plot	correlation	link to info on gene
Rv0088/-	(cc=0.5806)	info on Rv0088/-
Rv0844c/narL	(cc=0.5668)	info on Rv0844c/narL
Rv3407/vapB47	(cc=0.5364)	info on Rv3407/vapB47
Rv3628/ppa	(cc=0.5282)	info on Rv3628/ppa
Rv2330c/lppP	(cc=0.4974)	info on Rv2330c/lppP
Rv0198c/zmp1	(cc=0.4929)	info on Rv0198c/zmp1
Rv1021/-	(cc=0.4904)	info on Rv1021/-
Rv3429/PPE59	(cc=0.488)	info on Rv3429/PPE59
Rv0814c/sseC2	(cc=0.4811)	info on Rv0814c/sseC2
Rv1785c/cyp143	(cc=0.4683)	info on Rv1785c/cyp143

Correlation of Rv1362c/- with Rv0814c/sseC2

Normalized LFCs for Rv1362c/-:
(description and provenance of datasets)

	Rv1362c/-	Rv0814c/sseC2
Fe_supp_jason_reseq	0.167	1.257
low_pH_jason_reseq	-0.726	-1.021
NO_jason_reseq	0.142	-0.449
B6_jason_reseq	-0.81	-0.872
MHCII_jason_reseq	-0.066	-0.833
Isoniazid02	0.162	-0.704
Rifampicin4	-0.141	-0.244
Ethambutol3	1.469	1.422
Meropenem3	-0.062	0.426
Vancomycin16	0.164	-0.528
Rv2680_day32	0.58	-1.282
H37Rv_KO_MarP	0.244	-1.143
hypoxia_3wks	0.486	-0.59
hypoxia_6wks	0.528	-0.286
glycerol	0.426	-0.584
cholesterol	0.353	-0.013
AJ	0.602	1.035
Bibs02	0.126	1.461
Bibs02c	0.559	1.091
BL6	0.992	-0.327
BL6a	0.65	0.314
BXD01	0.658	0.642
BXD010	0.966	0.4
BXD011	1.5	0.711
BXD03	0.587	1.115
BXD04	0.176	1.163
BXD05	0.411	0.487
BXD06	0.542	0.724
BXD07	0.233	0.637
BXD08	0.514	0.879
BXD09	0.296	0.203
CAST	-0.023	3.372
CCcont	0.726	1.338
DS01	-0.85	1.17
DS02	-0.751	1.245
DS04	0.472	0.058
DS0c	-0.184	0.476
GP01	0.192	-0.619
GP02	0.739	-0.82
GP0c	-0.026	-0.785
NOD	-0.841	0.867
NZO	0.387	0.149
PWK	0.445	0.662
H37Rv_KO_CtpC	0.368	-0.049
H37Rv_KO_CtpD	0.993	0.825
H37Rv_KO_Rv1272	1.098	1.101
H37Rv_KO_SugABC	0.99	1.171
H37Rv_KO_MbtN	-0.582	0.989
Trans05	0.732	1.089
macrophage_unactivated	0.338	-0.35
IL1	0.866	-1.163
Rapamycin	0.193	-0.316
Tcell	-0.186	-1.206
GMCSF	0.502	0.108
IFNab	0.296	-0.311
IFNg	-0.203	-0.083
IFNg_GMCSF1	0.415	1.417
Rv1432_day32	-1.027	-0.824
Rv1565c_day32	0.352	-0.229
secA2_input	-0.041	0.149
delta_Rv3594	-0.858	-2.856
delta_Rv3717	-1.19	-3.69
delta_Rv3811	-0.483	-3.123
delta_Rv0954	-0.647	-2.423
PonA1	-0.822	-3.053
EccD1_KO	-0.303	-0.181
EspI_KO	-0.103	0.288
PE35_KO	0.694	0.563
PPE68_KO	0.538	0.195
glycerol2	0.918	0.506
lignocerate	0.838	0.357
oleate	0.753	0.838
phosphatidylcholine	0.881	0.65
acetate	0.866	1.538
glucAc	0.842	0.202
Rv0950ko	-0.169	-0.118
Rv1096ko	-1.071	-0.639
Rv3684ko	-1.706	-1.339
delta_otsA_trehalose	-0.163	-0.57