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 Rv1057/-:

update plot	correlation	link to info on gene
Rv0441c/-	(cc=0.622)	info on Rv0441c/-
Rv0870c/-	(cc=0.5734)	info on Rv0870c/-
Rv0530/-	(cc=0.5674)	info on Rv0530/-
Rv1376/-	(cc=0.5492)	info on Rv1376/-
Rv0754/PE_PGRS11	(cc=0.5169)	info on Rv0754/PE_PGRS11
Rv1838c/vapC13	(cc=0.5168)	info on Rv1838c/vapC13
Rv2237A/-	(cc=0.5155)	info on Rv2237A/-
Rv3196/-	(cc=0.5108)	info on Rv3196/-
Rv1403c/-	(cc=0.503)	info on Rv1403c/-
Rv2378c/mbtG	(cc=0.5023)	info on Rv2378c/mbtG

Correlation of Rv1057/- with Rv0441c/-

Normalized LFCs for Rv1057/-:
(description and provenance of datasets)

	Rv1057/-	Rv0441c/-
Fe_supp_jason_reseq	-0.014	0.071
low_pH_jason_reseq	0.186	-0.806
NO_jason_reseq	0.423	0.231
B6_jason_reseq	0.318	0.263
MHCII_jason_reseq	0.133	0.644
Isoniazid02	0.026	0.052
Rifampicin4	-0.777	-0.152
Ethambutol3	1.098	0.901
Meropenem3	-0.067	-0.161
Vancomycin16	-0.424	0.584
Rv2680_day32	-1.83	-1.157
H37Rv_KO_MarP	0.752	1.523
hypoxia_3wks	-0.941	-0.427
hypoxia_6wks	-0.382	-0.593
glycerol	0.161	0.0
cholesterol	0.434	-0.235
AJ	-0.049	-0.358
Bibs02	0.419	-0.339
Bibs02c	-0.062	0.735
BL6	-0.023	-0.034
BL6a	-0.281	0.323
BXD01	-0.522	-1.479
BXD010	-0.647	-0.67
BXD011	-0.057	1.087
BXD03	-0.429	-1.188
BXD04	-0.154	-0.996
BXD05	-0.879	-0.634
BXD06	-0.575	-0.217
BXD07	-0.423	-1.304
BXD08	-0.162	-0.8
BXD09	-0.43	-0.59
CAST	0.287	0.16
CCcont	-0.427	-0.36
DS01	0.027	0.062
DS02	0.038	0.844
DS04	-0.006	-0.256
DS0c	0.167	0.057
GP01	0.624	0.477
GP02	0.614	1.207
GP0c	-0.275	0.241
NOD	0.129	-0.029
NZO	-0.121	-0.763
PWK	-0.053	0.075
H37Rv_KO_CtpC	-0.51	-0.474
H37Rv_KO_CtpD	0.223	0.409
H37Rv_KO_Rv1272	-0.795	-0.364
H37Rv_KO_SugABC	-0.825	-1.385
H37Rv_KO_MbtN	-0.332	-0.86
Trans05	-0.736	-1.459
macrophage_unactivated	0.35	0.559
IL1	0.062	0.074
Rapamycin	0.488	1.025
Tcell	-0.485	-0.081
GMCSF	0.356	1.233
IFNab	-0.33	1.158
IFNg	-0.086	0.839
IFNg_GMCSF1	0.066	2.228
Rv1432_day32	0.521	1.949
Rv1565c_day32	0.118	0.33
secA2_input	0.41	0.153
delta_Rv3594	-0.109	-0.915
delta_Rv3717	-0.31	-0.638
delta_Rv3811	-0.644	-0.754
delta_Rv0954	0.271	-0.704
PonA1	0.105	0.23
EccD1_KO	0.585	1.411
EspI_KO	0.838	0.819
PE35_KO	0.163	0.47
PPE68_KO	0.336	0.384
glycerol2	0.645	0.56
lignocerate	1.097	0.773
oleate	-0.265	0.207
phosphatidylcholine	0.873	0.28
acetate	0.397	1.022
glucAc	0.369	0.985
Rv0950ko	-0.045	0.326
Rv1096ko	0.0	0.03
Rv3684ko	0.295	-0.495
delta_otsA_trehalose	1.013	0.906