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 Rv0071/-:

update plot	correlation	link to info on gene
Rv3612c/-	(cc=0.6207)	info on Rv3612c/-
Rv2651c/-	(cc=0.5984)	info on Rv2651c/-
Rv0237/lpqI	(cc=0.5977)	info on Rv0237/lpqI
Rv3450c/eccB4	(cc=0.5688)	info on Rv3450c/eccB4
Rv0918/-	(cc=0.5683)	info on Rv0918/-
Rv1181/pks4	(cc=0.5651)	info on Rv1181/pks4
Rv1184c/-	(cc=0.5614)	info on Rv1184c/-
Rv2636/-	(cc=0.5337)	info on Rv2636/-
Rv0856/-	(cc=0.5323)	info on Rv0856/-
Rv0601c/-	(cc=0.5215)	info on Rv0601c/-

Correlation of Rv0071/- with Rv0601c/-

Normalized LFCs for Rv0071/-:
(description and provenance of datasets)

	Rv0071/-	Rv0601c/-
Fe_supp_jason_reseq	0.624	1.601
low_pH_jason_reseq	-0.139	0.898
NO_jason_reseq	0.517	2.024
B6_jason_reseq	1.764	2.532
MHCII_jason_reseq	1.675	1.891
Isoniazid02	0.073	1.088
Rifampicin4	0.75	0.777
Ethambutol3	1.131	-0.185
Meropenem3	0.694	0.068
Vancomycin16	0.218	1.395
Rv2680_day32	1.537	1.998
H37Rv_KO_MarP	0.059	0.718
hypoxia_3wks	-0.152	-0.06
hypoxia_6wks	-0.182	1.222
glycerol	1.16	0.456
cholesterol	1.207	0.256
AJ	-0.504	-0.351
Bibs02	0.474	0.368
Bibs02c	0.887	1.217
BL6	0.441	-2.428
BL6a	-0.265	0.835
BXD01	-0.919	-1.118
BXD010	-0.781	-0.776
BXD011	-0.745	-0.583
BXD03	-1.044	-0.95
BXD04	-0.664	-0.816
BXD05	-0.091	0.0
BXD06	-0.636	-0.081
BXD07	-0.722	-0.557
BXD08	-0.8	-1.717
BXD09	-0.69	-0.086
CAST	0.235	0.641
CCcont	-0.342	-0.617
DS01	0.301	0.548
DS02	0.767	0.126
DS04	0.51	2.599
DS0c	-0.093	0.314
GP01	-2.601	-1.827
GP02	-2.703	-2.143
GP0c	-1.661	-1.094
NOD	1.694	2.018
NZO	0.027	-0.737
PWK	0.443	-0.789
H37Rv_KO_CtpC	0.0	-1.118
H37Rv_KO_CtpD	0.247	-2.459
H37Rv_KO_Rv1272	-0.757	-2.492
H37Rv_KO_SugABC	-0.655	-1.877
H37Rv_KO_MbtN	-0.546	-2.414
Trans05	-0.911	-0.111
macrophage_unactivated	0.085	2.541
IL1	0.181	1.373
Rapamycin	0.779	1.921
Tcell	-0.088	0.31
GMCSF	0.671	0.644
IFNab	-0.366	0.774
IFNg	-0.171	0.425
IFNg_GMCSF1	0.776	2.555
Rv1432_day32	0.426	0.0
Rv1565c_day32	1.978	-1.267
secA2_input	1.85	0.543
delta_Rv3594	-0.136	-0.802
delta_Rv3717	-0.409	0.274
delta_Rv3811	-0.201	0.726
delta_Rv0954	0.828	0.098
PonA1	0.177	0.792
EccD1_KO	-1.727	0.97
EspI_KO	-1.931	0.183
PE35_KO	-1.248	-1.843
PPE68_KO	-1.017	-0.534
glycerol2	0.422	-0.581
lignocerate	0.559	0.751
oleate	-0.903	-2.579
phosphatidylcholine	0.172	0.161
acetate	0.321	1.077
glucAc	0.587	0.806
Rv0950ko	0.066	0.175
Rv1096ko	0.709	0.657
Rv3684ko	-0.072	-0.298
delta_otsA_trehalose	1.156	0.084