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 Rv0579/-:

update plot	correlation	link to info on gene
Rv1051c/-	(cc=0.4543)	info on Rv1051c/-
Rv0134/ephF	(cc=0.4301)	info on Rv0134/ephF
Rv0971c/echA7	(cc=0.4224)	info on Rv0971c/echA7
Rv3763/lpqH	(cc=0.4152)	info on Rv3763/lpqH
Rv2748c/ftsK	(cc=0.396)	info on Rv2748c/ftsK
Rv0858c/dapC	(cc=0.395)	info on Rv0858c/dapC
Rv1720c/vapC12	(cc=0.3857)	info on Rv1720c/vapC12
Rv2230c/-	(cc=0.3819)	info on Rv2230c/-
Rv0028/-	(cc=0.3816)	info on Rv0028/-
Rv2751/-	(cc=0.3771)	info on Rv2751/-

Correlation of Rv0579/- with Rv1051c/-

Normalized LFCs for Rv0579/-:
(description and provenance of datasets)

	Rv0579/-	Rv1051c/-
Fe_supp_jason_reseq	-0.129	-1.045
low_pH_jason_reseq	-0.673	-0.857
NO_jason_reseq	0.079	0.488
B6_jason_reseq	-0.152	-2.276
MHCII_jason_reseq	0.122	-2.004
Isoniazid02	0.073	-0.297
Rifampicin4	0.0	0.249
Ethambutol3	-0.153	-0.474
Meropenem3	0.799	0.152
Vancomycin16	0.308	0.244
Rv2680_day32	-1.124	2.224
H37Rv_KO_MarP	-0.095	-0.343
hypoxia_3wks	-0.255	-0.096
hypoxia_6wks	-0.017	0.098
glycerol	-0.029	-0.291
cholesterol	-0.401	0.14
AJ	-0.271	-0.334
Bibs02	0.913	1.386
Bibs02c	-0.461	-1.314
BL6	0.596	2.642
BL6a	0.221	1.07
BXD01	0.418	1.147
BXD010	0.217	1.607
BXD011	0.352	1.404
BXD03	0.462	1.358
BXD04	-0.228	1.853
BXD05	0.105	0.929
BXD06	0.414	2.123
BXD07	0.466	1.959
BXD08	0.609	1.557
BXD09	0.547	2.161
CAST	0.462	-0.938
CCcont	0.438	1.42
DS01	0.585	1.547
DS02	0.369	-0.885
DS04	0.933	4.721
DS0c	0.354	-0.074
GP01	-0.182	1.156
GP02	0.772	1.7
GP0c	0.028	1.958
NOD	0.622	-1.276
NZO	-0.59	0.682
PWK	0.014	0.249
H37Rv_KO_CtpC	0.192	0.973
H37Rv_KO_CtpD	0.44	-0.516
H37Rv_KO_Rv1272	0.57	1.2
H37Rv_KO_SugABC	0.199	1.843
H37Rv_KO_MbtN	-0.54	-0.527
Trans05	-0.019	0.509
macrophage_unactivated	0.47	0.215
IL1	0.528	0.575
Rapamycin	0.743	0.954
Tcell	0.287	0.671
GMCSF	0.47	-1.001
IFNab	0.076	0.323
IFNg	0.516	0.74
IFNg_GMCSF1	0.468	-0.179
Rv1432_day32	0.356	0.18
Rv1565c_day32	-0.46	-0.747
secA2_input	-0.169	-0.318
delta_Rv3594	0.142	0.119
delta_Rv3717	-0.351	-0.457
delta_Rv3811	-0.495	-1.157
delta_Rv0954	-0.253	0.243
PonA1	0.321	1.767
EccD1_KO	-0.835	-1.194
EspI_KO	-0.374	-0.616
PE35_KO	-0.327	-0.767
PPE68_KO	-0.515	-1.683
glycerol2	-0.79	0.68
lignocerate	2.65	1.987
oleate	-1.148	-1.71
phosphatidylcholine	-0.19	1.367
acetate	0.382	2.608
glucAc	0.221	1.964
Rv0950ko	0.678	0.552
Rv1096ko	1.267	2.247
Rv3684ko	0.855	0.0
delta_otsA_trehalose	0.424	0.02