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 Rv1021/-

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

	Rv1362c/-	Rv1021/-
Fe_supp_jason_reseq	0.167	1.656
low_pH_jason_reseq	-0.726	-0.816
NO_jason_reseq	0.142	-0.116
B6_jason_reseq	-0.81	0.047
MHCII_jason_reseq	-0.066	-0.194
Isoniazid02	0.162	-0.105
Rifampicin4	-0.141	-0.726
Ethambutol3	1.469	-0.929
Meropenem3	-0.062	-0.086
Vancomycin16	0.164	0.573
Rv2680_day32	0.58	0.139
H37Rv_KO_MarP	0.244	-0.43
hypoxia_3wks	0.486	0.71
hypoxia_6wks	0.528	1.054
glycerol	0.426	-0.462
cholesterol	0.353	-0.427
AJ	0.602	-0.847
Bibs02	0.126	0.518
Bibs02c	0.559	0.205
BL6	0.992	2.07
BL6a	0.65	1.583
BXD01	0.658	1.689
BXD010	0.966	1.961
BXD011	1.5	1.547
BXD03	0.587	2.232
BXD04	0.176	1.528
BXD05	0.411	1.842
BXD06	0.542	1.796
BXD07	0.233	1.958
BXD08	0.514	1.375
BXD09	0.296	1.653
CAST	-0.023	0.592
CCcont	0.726	1.9
DS01	-0.85	0.34
DS02	-0.751	-0.452
DS04	0.472	2.042
DS0c	-0.184	1.188
GP01	0.192	1.3
GP02	0.739	1.146
GP0c	-0.026	0.482
NOD	-0.841	-0.662
NZO	0.387	0.165
PWK	0.445	0.223
H37Rv_KO_CtpC	0.368	0.954
H37Rv_KO_CtpD	0.993	1.002
H37Rv_KO_Rv1272	1.098	1.674
H37Rv_KO_SugABC	0.99	0.896
H37Rv_KO_MbtN	-0.582	0.382
Trans05	0.732	1.876
macrophage_unactivated	0.338	0.562
IL1	0.866	2.37
Rapamycin	0.193	2.391
Tcell	-0.186	-1.434
GMCSF	0.502	1.917
IFNab	0.296	1.527
IFNg	-0.203	1.523
IFNg_GMCSF1	0.415	1.986
Rv1432_day32	-1.027	-1.639
Rv1565c_day32	0.352	1.663
secA2_input	-0.041	-0.534
delta_Rv3594	-0.858	-0.601
delta_Rv3717	-1.19	-0.927
delta_Rv3811	-0.483	-0.5
delta_Rv0954	-0.647	-1.35
PonA1	-0.822	0.249
EccD1_KO	-0.303	-0.789
EspI_KO	-0.103	-0.128
PE35_KO	0.694	0.446
PPE68_KO	0.538	-0.144
glycerol2	0.918	0.209
lignocerate	0.838	0.689
oleate	0.753	0.388
phosphatidylcholine	0.881	0.448
acetate	0.866	0.745
glucAc	0.842	0.358
Rv0950ko	-0.169	0.938
Rv1096ko	-1.071	0.398
Rv3684ko	-1.706	0.134
delta_otsA_trehalose	-0.163	-1.021