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 Rv1499/-:

update plot	correlation	link to info on gene
Rv1987/-	(cc=0.5716)	info on Rv1987/-
Rv2544/lppB	(cc=0.5647)	info on Rv2544/lppB
Rv1805c/-	(cc=0.5374)	info on Rv1805c/-
Rv2281/pitB	(cc=0.5036)	info on Rv2281/pitB
Rv2308/-	(cc=0.5025)	info on Rv2308/-
Rv2758c/vapB21	(cc=0.4812)	info on Rv2758c/vapB21
Rv3224B/-	(cc=0.4637)	info on Rv3224B/-
Rv0318c/-	(cc=0.4608)	info on Rv0318c/-
Rv2369c/-	(cc=0.4604)	info on Rv2369c/-
Rv0260c/-	(cc=0.4595)	info on Rv0260c/-

Correlation of Rv1499/- with Rv1805c/-

Normalized LFCs for Rv1499/-:
(description and provenance of datasets)

	Rv1499/-	Rv1805c/-
Fe_supp_jason_reseq	1.255	0.218
low_pH_jason_reseq	-0.432	-1.673
NO_jason_reseq	-0.903	-0.399
B6_jason_reseq	0.09	-0.082
MHCII_jason_reseq	-0.138	-0.977
Isoniazid02	-0.375	-0.496
Rifampicin4	-0.536	-1.795
Ethambutol3	-0.331	-0.665
Meropenem3	-0.339	-1.109
Vancomycin16	-0.196	-0.905
Rv2680_day32	0.175	0.024
H37Rv_KO_MarP	-0.526	-0.291
hypoxia_3wks	-0.12	-0.833
hypoxia_6wks	0.574	1.025
glycerol	-1.131	-1.128
cholesterol	-0.38	3.081
AJ	0.024	0.239
Bibs02	0.574	-0.529
Bibs02c	0.258	-0.414
BL6	0.806	-0.194
BL6a	-0.225	-0.392
BXD01	0.515	0.944
BXD010	0.021	-0.37
BXD011	0.388	0.461
BXD03	1.053	-0.456
BXD04	0.749	-0.546
BXD05	0.33	1.023
BXD06	0.402	0.76
BXD07	0.579	0.699
BXD08	0.927	1.121
BXD09	0.752	0.645
CAST	0.325	0.16
CCcont	1.221	1.852
DS01	0.086	0.392
DS02	0.036	-0.337
DS04	-0.797	0.2
DS0c	0.357	1.279
GP01	-0.725	-1.099
GP02	0.852	-0.926
GP0c	-0.44	-1.447
NOD	-0.298	-0.168
NZO	0.952	0.392
PWK	-0.074	1.236
H37Rv_KO_CtpC	0.984	-1.119
H37Rv_KO_CtpD	1.16	0.358
H37Rv_KO_Rv1272	0.512	0.546
H37Rv_KO_SugABC	0.481	-0.831
H37Rv_KO_MbtN	0.679	2.897
Trans05	0.207	-0.73
macrophage_unactivated	2.838	2.364
IL1	0.638	0.433
Rapamycin	-0.212	0.092
Tcell	1.14	0.29
GMCSF	0.908	-1.84
IFNab	0.154	-0.49
IFNg	0.556	0.877
IFNg_GMCSF1	0.892	-0.619
Rv1432_day32	0.231	0.0
Rv1565c_day32	0.584	-1.229
secA2_input	-0.061	0.238
delta_Rv3594	-0.286	-0.779
delta_Rv3717	-0.909	0.473
delta_Rv3811	-0.149	0.513
delta_Rv0954	-0.423	-1.45
PonA1	-0.616	-2.179
EccD1_KO	-0.329	-1.085
EspI_KO	-0.471	-0.496
PE35_KO	-0.239	-0.729
PPE68_KO	0.211	-1.328
glycerol2	1.606	1.872
lignocerate	2.356	2.403
oleate	-0.872	0.241
phosphatidylcholine	1.756	1.499
acetate	1.081	2.404
glucAc	1.473	2.113
Rv0950ko	0.817	0.329
Rv1096ko	-0.308	-1.056
Rv3684ko	-0.334	-1.778
delta_otsA_trehalose	0.256	-0.311